.command.log - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR (tih_rna_sample_00480_B23WHTKLT4_1)

File Info

Filename: .command.log
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/061e591b04bc0cebccbc4759d14f23/.command.log
Size: 347.3 KB
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR (tih_rna_sample_00480_B23WHTKLT4_1)
Attempt
Content

  Downloading: s3://natera-platform-sandbox/pipeline-resources/AIH/rna/GRCh38/starfusion/ctat_genome_lib_build_dir
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/061e591b04bc0cebccbc4759d14f23/.command.sh
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/38/f8952e53d29c5fe4f59da4bf0162ff/tih_rna_sample_00480_B23WHTKLT4_1_1.fastp.fastq.gz
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/f4/df67147bdf4c9aabc1f600650990d1/tih_rna_sample_00480_B23WHTKLT4_1.fusionreport.tsv
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/4c/061e591b04bc0cebccbc4759d14f23/.command.run
  Downloading: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/38/f8952e53d29c5fe4f59da4bf0162ff/tih_rna_sample_00480_B23WHTKLT4_1_2.fastp.fastq.gz
==> STAGING COMPLETE (6 inputs)

Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_pair_to_mini_genome_join.pl --fusions tih_rna_sample_00480_B23WHTKLT4_1.fusionreport.tsv --gtf /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir/ref_annot.gtf --genome_fa /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir/ref_genome.fa --out_prefix /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1 --shrink_introns --max_intron_length 1000 
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1268800	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 1; exon_id "ENSE00001880874.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268800,1268879,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 2; exon_id "ENSE00003704245.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 3; exon_id "ENSE00003476133.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 4; exon_id "ENSE00003614022.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1288815	1288888	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 4; exon_id "ENSE00003614022.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288815,1288888,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 5; exon_id "ENSE00003677072.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 5; exon_id "ENSE00003677072.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 6; exon_id "ENSE00003470729.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1294328	1294461	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 6; exon_id "ENSE00003470729.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 7; exon_id "ENSE00003575401.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1295427	1295456	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 7; exon_id "ENSE00003575401.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 8; exon_id "ENSE00003514563.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1300491	1300626	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 8; exon_id "ENSE00003514563.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1303923	1304019	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 9; exon_id "ENSE00003534451.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1303923	1304019	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 9; exon_id "ENSE00003534451.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 10; exon_id "ENSE00003638651.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1305446	1305527	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 10; exon_id "ENSE00003638651.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1309402	1309935	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 11; exon_id "ENSE00003523981.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309935,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1309402	1309476	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000501036.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-219"; exon_number 11; exon_id "ENSE00003523981.1"; level 3; protein_id "ENSP00000440491.1"; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55361.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309476,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1268800	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 1; exon_id "ENSE00001880874.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268800,1268879,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1274755	1274842	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 2; exon_id "ENSE00001425284.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274842,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 3; exon_id "ENSE00003704814.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 3; exon_id "ENSE00003704814.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 4; exon_id "ENSE00003704530.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 4; exon_id "ENSE00003704530.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 5; exon_id "ENSE00003544416.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 5; exon_id "ENSE00003544416.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 6; exon_id "ENSE00003691330.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 6; exon_id "ENSE00003691330.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 7; exon_id "ENSE00003677072.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 7; exon_id "ENSE00003677072.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 8; exon_id "ENSE00003470729.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1294328	1294461	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 8; exon_id "ENSE00003470729.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 9; exon_id "ENSE00003575401.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1295427	1295456	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 9; exon_id "ENSE00003575401.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 10; exon_id "ENSE00003514563.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1300491	1300626	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 10; exon_id "ENSE00003514563.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1303261	1303362	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 11; exon_id "ENSE00003481645.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303261,1303362,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1303261	1303362	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 11; exon_id "ENSE00003481645.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303261,1303362,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1303923	1304019	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 12; exon_id "ENSE00003534451.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1303923	1304019	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 12; exon_id "ENSE00003534451.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 13; exon_id "ENSE00003638651.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1305446	1305527	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 13; exon_id "ENSE00003638651.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1309402	1309935	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 14; exon_id "ENSE00003523981.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309935,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1309402	1309476	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000417535.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-208"; exon_number 14; exon_id "ENSE00003523981.1"; level 3; protein_id "ENSP00000394227.2"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_principal_4"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55359.1"; havana_gene "OTTHUMG00000012533.8"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309476,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268808	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 1; exon_id "ENSE00001421176.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268808,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274842	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 2; exon_id "ENSE00001425284.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274842,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1294328	1294461	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1295427	1295456	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 10; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1300491	1300626	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 10; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1303923	1304019	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 11; exon_id "ENSE00003534451.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1303923	1304019	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 11; exon_id "ENSE00003534451.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 12; exon_id "ENSE00003638651.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1305446	1305527	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 12; exon_id "ENSE00003638651.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309402	1310381	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 13; exon_id "ENSE00001940885.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1310381,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1309402	1309476	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381524.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-205"; exon_number 13; exon_id "ENSE00001940885.1"; level 2; protein_id "ENSP00000370935.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035013.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309476,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268814	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000493312.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-216"; exon_number 1; exon_id "ENSE00001823875.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035799.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268814,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274842	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000493312.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-216"; exon_number 2; exon_id "ENSE00001425284.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035799.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274842,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000493312.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-216"; exon_number 3; exon_id "ENSE00003704245.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035799.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000493312.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-216"; exon_number 4; exon_id "ENSE00003476133.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035799.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000493312.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-216"; exon_number 5; exon_id "ENSE00003510151.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035799.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000493312.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-216"; exon_number 6; exon_id "ENSE00003590891.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035799.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000493312.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-216"; exon_number 7; exon_id "ENSE00003586821.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035799.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000493312.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-216"; exon_number 8; exon_id "ENSE00003653591.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035799.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1300491	1300543	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000493312.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-216"; exon_number 9; exon_id "ENSE00001855090.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035799.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300543,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268814	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 1; exon_id "ENSE00001823875.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268814,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274818	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 2; exon_id "ENSE00001435799.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274818,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1294328	1294461	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1295427	1295456	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 10; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1300491	1300626	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 10; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1303923	1304019	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 11; exon_id "ENSE00003534451.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1303923	1304019	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 11; exon_id "ENSE00003534451.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 12; exon_id "ENSE00003638651.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1305446	1305527	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 12; exon_id "ENSE00003638651.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309402	1309935	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 13; exon_id "ENSE00003523981.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309935,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1309402	1309476	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381529.9_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-206"; exon_number 13; exon_id "ENSE00003523981.1"; level 2; protein_id "ENSP00000370940.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "MANE_Select"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035797.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309476,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268818	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 1; exon_id "ENSE00001489077.2"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268818,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 2; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 2; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 3; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 3; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 4; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 4; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 5; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 5; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 6; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 6; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294395	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 7; exon_id "ENSE00001630005.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294395,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1294328	1294395	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000412290.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-207"; exon_number 7; exon_id "ENSE00001630005.1"; level 2; protein_id "ENSP00000410667.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "mRNA_end_NF"; tag "cds_end_NF"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035800.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294395,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268830	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 1; exon_id "ENSE00001764956.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268830,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274818	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 2; exon_id "ENSE00001435799.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274818,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282409	1282560	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 3; exon_id "ENSE00001650864.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282409,1282560,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 4; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 4; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 5; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 5; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 6; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 6; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 7; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 7; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 8; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 8; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 9; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1294328	1294461	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 9; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 10; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1295427	1295456	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 10; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 11; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1300491	1300626	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 11; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1303923	1304019	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 12; exon_id "ENSE00003534451.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1303923	1304019	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 12; exon_id "ENSE00003534451.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 13; exon_id "ENSE00003638651.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1305446	1305527	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 13; exon_id "ENSE00003638651.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309402	1309924	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 14; exon_id "ENSE00003798189.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309924,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1309402	1309476	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000432318.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-209"; exon_number 14; exon_id "ENSE00003798189.1"; level 2; protein_id "ENSP00000416437.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "appris_alternative_2"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35191.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035801.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309476,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268832	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 1; exon_id "ENSE00001865477.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268832,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274842	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 2; exon_id "ENSE00001425284.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274842,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1294328	1294461	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1295427	1295456	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 10; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1300491	1300626	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 10; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1303923	1304019	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 11; exon_id "ENSE00003534451.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1303923	1304019	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 11; exon_id "ENSE00003534451.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 12; exon_id "ENSE00003638651.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1305446	1305527	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 12; exon_id "ENSE00003638651.1"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1305628	1305941	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 13; exon_id "ENSE00001488866.3"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305628,1305941,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1305628	1305732	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381509.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-204"; exon_number 13; exon_id "ENSE00001488866.3"; level 2; protein_id "ENSP00000370920.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55360.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035017.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305628,1305732,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268832	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 1; exon_id "ENSE00001865477.1"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268832,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274842	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 2; exon_id "ENSE00001425284.1"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274842,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1287174	1287198	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 5; exon_id "ENSE00001947282.2"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1287174,1287198,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1287174	1287198	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 5; exon_id "ENSE00001947282.2"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1287174,1287198,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309840	1309922	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 6; exon_id "ENSE00001825630.2"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309840,1309922,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1309840	1309865	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000494969.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-217"; exon_number 6; exon_id "ENSE00001825630.2"; level 2; protein_id "ENSP00000476684.1"; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "dotter_confirmed"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035803.2"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309840,1309865,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268835	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000481245.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-213"; exon_number 1; exon_id "ENSE00001917246.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035802.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268835,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274818	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000481245.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-213"; exon_number 2; exon_id "ENSE00001435799.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035802.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274818,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1281871	1282220	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000481245.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-213"; exon_number 3; exon_id "ENSE00001859523.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035802.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1281871,1282220,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268845	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 1; exon_id "ENSE00001858701.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268845,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274842	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 2; exon_id "ENSE00001425284.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274842,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 8; exon_id "ENSE00003534941.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1305446	1305498	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 8; exon_id "ENSE00003534941.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305498,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309402	1309934	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355805.7_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-202"; exon_number 9; exon_id "ENSE00003685639.1"; level 2; protein_id "ENSP00000348058.2"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35193.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035014.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309934,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268845	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 1; exon_id "ENSE00001858701.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268845,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274842	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 2; exon_id "ENSE00001425284.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274842,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1294328	1294461	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1295427	1295456	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1303923	1304019	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 10; exon_id "ENSE00003666526.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1303923	1303967	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 10; exon_id "ENSE00003666526.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1303967,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 11; exon_id "ENSE00003598154.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309402	1309934	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000486791.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "nonsense_mediated_decay"; transcript_name "CSF2RA-214"; exon_number 12; exon_id "ENSE00003685639.1"; level 2; protein_id "ENSP00000436825.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035015.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309934,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1268845	1268879	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 1; exon_id "ENSE00001858701.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1268845,1268879,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1274755	1274842	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 2; exon_id "ENSE00001425284.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1274755,1274842,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282678	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282678,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 3; exon_id "ENSE00003704814.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 4; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 5; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 6; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 7; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1294328	1294461	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 8; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1295427	1295456	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 9; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 10; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1300491	1300626	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 10; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309402	1309934	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 11; exon_id "ENSE00003613698.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309934,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1309402	1309586	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000355432.8_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-201"; exon_number 11; exon_id "ENSE00003613698.1"; level 2; protein_id "ENSP00000347606.3"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35190.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035016.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309586,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1282686	1282779	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 1; exon_id "ENSE00001488833.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282686,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1282704	1282779	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 1; exon_id "ENSE00001488833.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1282704,1282779,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285778	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 2; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1285778	1285920	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 2; exon_id "ENSE00003704530.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285778,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 3; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288519	1288642	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 3; exon_id "ENSE00003544416.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1288888	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 4; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1288759	1288888	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 4; exon_id "ENSE00003691330.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1288888,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290337	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 5; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1290337	1290509	.	+	1	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 5; exon_id "ENSE00003677072.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290337,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 6; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1294328	1294461	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 6; exon_id "ENSE00003470729.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 7; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1295427	1295456	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 7; exon_id "ENSE00003575401.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 8; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1300491	1300626	.	+	0	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 8; exon_id "ENSE00003514563.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 9; exon_id "ENSE00003534941.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1305446	1305498	.	+	2	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 9; exon_id "ENSE00003534941.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305498,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309402	1309638	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000381500.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "protein_coding"; transcript_name "CSF2RA-203"; exon_number 10; exon_id "ENSE00001488828.1"; level 2; protein_id "ENSP00000370911.1"; transcript_support_level "1"; hgnc_id "HGNC:2435"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS35192.1"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035798.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309638,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1285652	1285920	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000477940.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-211"; exon_number 1; exon_id "ENSE00001884848.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035804.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1285652,1285920,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288519	1288640	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000477940.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-211"; exon_number 2; exon_id "ENSE00001811457.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035804.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288519,1288640,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288598	1288642	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000478256.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-212"; exon_number 1; exon_id "ENSE00001909565.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035805.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288598,1288642,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1288759	1289105	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000478256.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-212"; exon_number 2; exon_id "ENSE00001877177.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035805.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1288759,1289105,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1290453	1290509	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000475259.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-210"; exon_number 1; exon_id "ENSE00001946171.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035807.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1290453,1290509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000475259.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-210"; exon_number 2; exon_id "ENSE00003586821.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035807.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000475259.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-210"; exon_number 3; exon_id "ENSE00003653591.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035807.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000475259.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-210"; exon_number 4; exon_id "ENSE00003689612.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035807.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1302897	1302916	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000475259.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-210"; exon_number 5; exon_id "ENSE00001897581.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035807.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1302897,1302916,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309824	1309922	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000475259.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-210"; exon_number 6; exon_id "ENSE00001871342.1"; level 2; transcript_support_level "2"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035807.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309824,1309922,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294225	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000491683.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-215"; exon_number 1; exon_id "ENSE00001921740.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035806.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294225,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295578	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000491683.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-215"; exon_number 2; exon_id "ENSE00001953182.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035806.1"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295578,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1294328	1294461	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000498153.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-218"; exon_number 1; exon_id "ENSE00003586821.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035808.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1294328,1294461,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1295427	1295456	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000498153.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-218"; exon_number 2; exon_id "ENSE00003653591.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035808.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1295427,1295456,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1300491	1300626	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000498153.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-218"; exon_number 3; exon_id "ENSE00003689612.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035808.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1300491,1300626,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1303261	1303362	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000498153.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-218"; exon_number 4; exon_id "ENSE00003581164.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035808.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303261,1303362,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1303923	1304019	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000498153.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-218"; exon_number 5; exon_id "ENSE00003531064.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035808.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1303923,1304019,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1305446	1305527	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000498153.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-218"; exon_number 6; exon_id "ENSE00003598154.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035808.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1305446,1305527,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1309402	1309934	.	+	.	gene_id "CSF2RA^ENSG00000198223.17_PAR_Y"; transcript_id "ENST00000498153.6_PAR_Y"; gene_type "protein_coding"; gene_name "CSF2RA"; transcript_type "processed_transcript"; transcript_name "CSF2RA-218"; exon_number 7; exon_id "ENSE00003685639.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:2435"; tag "PAR"; havana_gene "OTTHUMG00000012533.8"; havana_transcript "OTTHUMT00000035808.3"; FI_gene_label "CSF2RA^ENSG00000198223.17_PAR_Y"; orig_coord_info "chrY,1309402,1309934,+";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1212556	1212637	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 1; exon_id "ENSE00001591574.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1212556,1212637,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1212556	1212634	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 1; exon_id "ENSE00001591574.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1212556,1212634,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1208806	1208908	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 2; exon_id "ENSE00001725348.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1208806,1208908,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1208806	1208908	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 2; exon_id "ENSE00001725348.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1208806,1208908,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1206433	1206599	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 3; exon_id "ENSE00003755862.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1206433,1206599,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1206433	1206599	.	-	1	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 3; exon_id "ENSE00003755862.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1206433,1206599,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1202402	1202535	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 4; exon_id "ENSE00003756004.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1202402,1202535,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1202402	1202535	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 4; exon_id "ENSE00003756004.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1202402,1202535,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1198562	1198724	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 5; exon_id "ENSE00001752466.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1198562,1198724,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1198562	1198724	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 5; exon_id "ENSE00001752466.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1198562,1198724,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1196780	1196900	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 6; exon_id "ENSE00003755355.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1196780,1196900,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1196780	1196900	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 6; exon_id "ENSE00003755355.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1196780,1196900,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1193218	1193302	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 7; exon_id "ENSE00003746279.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1193218,1193302,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1193218	1193302	.	-	1	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 7; exon_id "ENSE00003746279.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1193218,1193302,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1190497	1191160	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 8; exon_id "ENSE00003722469.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1190497,1191160,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1190900	1191160	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 8; exon_id "ENSE00003722469.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1190900,1191160,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1187549	1187574	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381566.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-201"; exon_number 9; exon_id "ENSE00003729130.1"; level 3; protein_id "ENSP00000370978.2"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "basic"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1187549,1187574,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1212556	1212649	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 1; exon_id "ENSE00003755992.2"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1212556,1212649,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1212556	1212634	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 1; exon_id "ENSE00003755992.2"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1212556,1212634,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1208806	1208908	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 2; exon_id "ENSE00001725348.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1208806,1208908,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1208806	1208908	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 2; exon_id "ENSE00001725348.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1208806,1208908,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1206433	1206599	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 3; exon_id "ENSE00003755862.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1206433,1206599,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1206433	1206599	.	-	1	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 3; exon_id "ENSE00003755862.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1206433,1206599,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1202402	1202535	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 4; exon_id "ENSE00003756004.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1202402,1202535,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1202402	1202535	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 4; exon_id "ENSE00003756004.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1202402,1202535,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1198562	1198724	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 5; exon_id "ENSE00001752466.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1198562,1198724,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1198562	1198724	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 5; exon_id "ENSE00001752466.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1198562,1198724,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1196780	1196900	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 6; exon_id "ENSE00003755355.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1196780,1196900,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1196780	1196900	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 6; exon_id "ENSE00003755355.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1196780,1196900,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1193218	1193302	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 7; exon_id "ENSE00003746279.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1193218,1193302,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1193218	1193302	.	-	1	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 7; exon_id "ENSE00003746279.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1193218,1193302,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1190490	1191160	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 8; exon_id "ENSE00003758390.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1190490,1191160,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1190900	1191160	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000400841.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-203"; exon_number 8; exon_id "ENSE00003758390.1"; level 2; protein_id "ENSP00000383641.3"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75945.1"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144413.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1190900,1191160,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1212556	1212723	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 1; exon_id "ENSE00001916494.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1212556,1212723,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1212556	1212634	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 1; exon_id "ENSE00001916494.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1212556,1212634,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1208806	1208905	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 2; exon_id "ENSE00001883966.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1208806,1208905,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1208806	1208905	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 2; exon_id "ENSE00001883966.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1208806,1208905,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1206433	1206599	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 3; exon_id "ENSE00003755862.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1206433,1206599,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1206433	1206599	.	-	1	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 3; exon_id "ENSE00003755862.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1206433,1206599,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1202402	1202535	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 4; exon_id "ENSE00003756004.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1202402,1202535,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1202402	1202535	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 4; exon_id "ENSE00003756004.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1202402,1202535,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1198801	1199145	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 5; exon_id "ENSE00001837393.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1198801,1199145,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	1198930	1199145	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 5; exon_id "ENSE00001837393.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1198930,1199145,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1196780	1196900	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 6; exon_id "ENSE00003625623.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1196780,1196900,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1193218	1193302	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 7; exon_id "ENSE00003757266.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1193218,1193302,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	1190492	1191160	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000467626.6_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "nonsense_mediated_decay"; transcript_name "CRLF2-204"; exon_number 8; exon_id "ENSE00003758632.1"; level 2; protein_id "ENSP00000485269.1"; transcript_support_level "5"; hgnc_id "HGNC:14281"; tag "PAR"; havana_gene "OTTHUMG00000067432.3"; havana_transcript "OTTHUMT00000144414.2"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1190492,1191160,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1212556	1212634	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 1; exon_id "ENSE00001603134.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1212556,1212634,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1206433	1206599	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 2; exon_id "ENSE00003743277.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1206433,1206599,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1206433	1206445	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 2; exon_id "ENSE00003743277.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1206433,1206445,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1202402	1202535	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 3; exon_id "ENSE00003756004.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1202402,1202535,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1202402	1202535	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 3; exon_id "ENSE00003756004.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1202402,1202535,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1198562	1198724	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 4; exon_id "ENSE00001752466.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1198562,1198724,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1198562	1198724	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 4; exon_id "ENSE00001752466.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1198562,1198724,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1196780	1196900	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 5; exon_id "ENSE00003755355.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1196780,1196900,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1196780	1196900	.	-	2	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 5; exon_id "ENSE00003755355.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1196780,1196900,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1193218	1193302	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 6; exon_id "ENSE00003746279.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1193218,1193302,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1193218	1193302	.	-	1	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 6; exon_id "ENSE00003746279.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1193218,1193302,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	exon	1190897	1191160	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 7; exon_id "ENSE00003734593.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1190897,1191160,-";
Error, chr discrepancy in gtf info for chrY	ENSEMBL	CDS	1190900	1191160	.	-	0	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENST00000381567.8_PAR_Y"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "protein_coding"; transcript_name "CRLF2-202"; exon_number 7; exon_id "ENSE00003734593.1"; level 3; protein_id "ENSP00000370979.4"; transcript_support_level "1"; hgnc_id "HGNC:14281"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS75944.1"; havana_gene "OTTHUMG00000067432.3"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1190900,1191160,-";
Error, chr discrepancy in gtf info for chrY	CUSTOM	exon	1187549	1262723	.	-	.	gene_id "CRLF2^ENSG00000205755.12_PAR_Y"; transcript_id "ENSG00000205755.12_PAR_Y.trans.custom"; gene_type "protein_coding"; gene_name "CRLF2"; transcript_type "misc_RNA"; FI_gene_label "CRLF2^ENSG00000205755.12_PAR_Y"; orig_coord_info "chrY,1187549,1262723,-";
Done.
Execution Time = 0.18 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_pair_to_mini_genome_join.pl --fusions tih_rna_sample_00480_B23WHTKLT4_1.fusionreport.tsv --gtf /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir/ref_annot.gtf --genome_fa /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir/ref_genome.fa --out_prefix /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1 --shrink_introns --max_intron_length 1000 
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/fusion_contigs.ok
Running: cp /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fa
Execution Time = 0.00 minutes. CMD: cp /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fa
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/cp_contigs_file_workdir
Running: cp /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf
Execution Time = 0.00 minutes. CMD: cp /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/cp_gtf_file_workdir.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fasta_and_gtf_to_cytoband.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf > /tmp/nxf.Tyeu4N0sIR/cytoBand.txt
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fasta_and_gtf_to_cytoband.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf > /tmp/nxf.Tyeu4N0sIR/cytoBand.txt
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/cytoband.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/gtf_gene_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed
-parsing GTF file: /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf
Execution Time = 0.01 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/gtf_gene_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/merged_contig_gtf_to_bed.ok
Running: sort -k1,1 -k2,2n /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: sort -k1,1 -k2,2n /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed.sorted.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.bed.bedsort.ok
Running: bgzip -f /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: bgzip -f /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed.sorted.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.bed.bgzip.ok
Running: tabix -p bed /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed.sorted.bed.gz
Execution Time = 0.00 minutes. CMD: tabix -p bed /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.bed.sorted.bed.gz
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.bed.tabix.ok
Running: samtools faidx /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa
Execution Time = 0.00 minutes. CMD: samtools faidx /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/merged_contig_fai.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/run_FI_STAR.pl --genome /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir/ref_genome.fa --patch /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fa --max_mate_dist 100000 -G /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf --CPU 8 --out_prefix tih_rna_sample_00480_B23WHTKLT4_1.star --out_dir /tmp/nxf.Tyeu4N0sIR/fi_workdir --reads "/tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1_2.fastp.fastq.gz"
* Running CMD: /usr/local/bin/STAR  --runThreadN 8  --genomeDir /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir/ref_genome.fa.star.idx  --outSAMtype BAM SortedByCoordinate  --twopassMode None  --alignSJDBoverhangMin 10  --genomeSuffixLengthMax 10000 --limitBAMsortRAM 47271261705  --alignInsertionFlush Right   --alignMatesGapMax 100000  --alignIntronMax 100000  --outSAMattributes All  --readFilesIn /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1_2.fastp.fastq.gz  --genomeFastaFiles /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fa  --outSAMfilter KeepAllAddedReferences  --sjdbGTFfile /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf  --alignSJstitchMismatchNmax 5 -1 5 5  --scoreGapNoncan -6  --readFilesCommand 'gunzip -c' 
Jun 08 09:59:40 ..... started STAR run
Jun 08 09:59:40 ..... loading genome
Jun 08 10:01:24 ... generating Suffix Array index
Jun 08 10:05:08 ... completed Suffix Array index
Jun 08 10:05:08 ..... processing annotations GTF
Jun 08 10:05:08 ..... inserting junctions into the genome indices
Jun 08 10:06:09 ..... started mapping
Jun 08 10:59:30 ..... finished mapping
Jun 08 10:59:31 ..... started sorting BAM
Jun 08 10:59:35 ..... finished successfully
* Running CMD: mv Aligned.sortedByCoord.out.bam tih_rna_sample_00480_B23WHTKLT4_1.star.sortedByCoord.out.bam
* Running CMD: samtools index tih_rna_sample_00480_B23WHTKLT4_1.star.sortedByCoord.out.bam
Execution Time = 60.04 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/run_FI_STAR.pl --genome /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir/ref_genome.fa --patch /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fa --max_mate_dist 100000 -G /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf --CPU 8 --out_prefix tih_rna_sample_00480_B23WHTKLT4_1.star --out_dir /tmp/nxf.Tyeu4N0sIR/fi_workdir --reads "/tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1_2.fastp.fastq.gz"
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/run_STAR.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/bam_mark_duplicates.py  -i /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.sortedByCoord.out.bam   -o /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam   --remove_dups 
11:00:21 : INFO : Done.
Execution Time = 0.63 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/bam_mark_duplicates.py  -i /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.sortedByCoord.out.bam   -o /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam   --remove_dups 
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/mark_dup_reads.ok
Running: samtools index /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam
Execution Time = 0.07 minutes. CMD: samtools index /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/mark_dups_reads.index.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/get_fusion_JUNCTION_reads_from_fusion_contig_bam.pl --gtf_file /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf --MIN_ALIGN_PER_ID 96 --bam /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam  --genome_lib_dir ctat_genome_lib_build_dir  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junc_reads.sam
-parsing GTF file: /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf
-parsing /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam

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[7130000]   -done parsing /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.  Extracting junction info.
junction read elimination tally: $VAR1 = {
          'seq-similar region overlap' => 310,
          'exons hit < 2' => 1,
          ' ** passed ** ' => 11552,
          'small anchor length' => 88,
          'num_hits: 6 != num_counted_on_fusion_contigs 4 ' => 40,
          'num_hits: 2 != num_counted_on_fusion_contigs 1 ' => 1685,
          'num_hits: 6 != num_counted_on_fusion_contigs 2 ' => 10,
          'num_hits: 6 != num_counted_on_fusion_contigs 3 ' => 6,
          'num_hits: 4 != num_counted_on_fusion_contigs 2 ' => 458,
          'excessive soft clipping' => 41901,
          'num_hits: 5 != num_counted_on_fusion_contigs 3 ' => 9,
          'per_id < 96' => 30073,
          'num_hits: 3 != num_counted_on_fusion_contigs 1 ' => 169,
          'num_hits: 5 != num_counted_on_fusion_contigs 2 ' => 6,
          'num_hits: 3 != num_counted_on_fusion_contigs 2 ' => 144,
          'num_hits: 5 != num_counted_on_fusion_contigs 4 ' => 4,
          'low complexity anchor region' => 22,
          'num genes matched < 2' => 573,
          'num_hits: 4 != num_counted_on_fusion_contigs 3 ' => 21,
          'num_hits: 4 != num_counted_on_fusion_contigs 1 ' => 13
        };
-writing fusion junction support info.
Execution Time = 4.04 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/get_fusion_JUNCTION_reads_from_fusion_contig_bam.pl --gtf_file /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf --MIN_ALIGN_PER_ID 96 --bam /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam  --genome_lib_dir ctat_genome_lib_build_dir  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junc_reads.sam
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/get_fusion_JUNCTION_reads_from_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/get_fusion_SPANNING_reads_from_bam.from_chim_summary.pl --gtf_file /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf --MIN_ALIGN_PER_ID 96 --bam /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam --junction_info /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junction_info --genome_lib_dir ctat_genome_lib_build_dir   > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_span_reads.sam
-outputting the spanning read info: /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_spanning_info.
 - counting read alignments among fusion contigs.

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[46000]   -fusion SPANNING read extraction for scaff: AC242842.2--SRGAP2B

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[160000]   -fusion SPANNING read extraction for scaff: ADAM9--LSM1

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[296000]   
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[298000]   
[299000]   
[300000]   -fusion SPANNING read extraction for scaff: ASH1L--SMG5

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[26000]   
[27000]   -fusion SPANNING read extraction for scaff: AXL--CYP2B6

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[216000]   
[217000]   -fusion SPANNING read extraction for scaff: BAG4--ADAM9

[1000]   
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[8000]   
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[49000]   
[50000]   
[51000]   -fusion SPANNING read extraction for scaff: BBOF1--SIK3

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[133000]   
[134000]   
[135000]   -fusion SPANNING read extraction for scaff: BCAM--CEACAM19

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[8000]   
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[41000]   
[42000]   
[43000]   
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[45000]   
[46000]   
[47000]   -fusion SPANNING read extraction for scaff: BICD1--SPRY4-AS1

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[5000]   
[6000]   
[7000]   
[8000]   
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[59000]   
[60000]   -fusion SPANNING read extraction for scaff: BMPR1B--PDLIM5

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[200000]   
[201000]   -fusion SPANNING read extraction for scaff: BOP1--ARHGAP39

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[18000]   
[19000]   -fusion SPANNING read extraction for scaff: CASP8--AOX1

[1000]   
[2000]   -fusion SPANNING read extraction for scaff: CCDC169--SOHLH2

[1000]   
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[8000]   
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[13000]   
[14000]   -fusion SPANNING read extraction for scaff: COX6CP1--COX6C

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[5000]   
[6000]   -fusion SPANNING read extraction for scaff: CSF2RA--CRLF2

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[111000]   
[112000]   -fusion SPANNING read extraction for scaff: DDHD2--IDO1

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[8000]   
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[95000]   
[96000]   -fusion SPANNING read extraction for scaff: DTNB--ASXL2

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[68000]   
[69000]   -fusion SPANNING read extraction for scaff: EGLN2--TSHZ3

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[8000]   
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[26000]   
[27000]   -fusion SPANNING read extraction for scaff: ELP3--NUGGC

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[6000]   
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[8000]   
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[25000]   
[26000]   -fusion SPANNING read extraction for scaff: ELP3--SCARA5

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[183000]   -fusion SPANNING read extraction for scaff: ESR1--CCDC170

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[37000]   
[38000]   -fusion SPANNING read extraction for scaff: EXOC2--F13A1

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[33000]   
[34000]   -fusion SPANNING read extraction for scaff: FAM53A--LETM1

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[109000]   -fusion SPANNING read extraction for scaff: FAM53A--NSD2

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[36000]   
[37000]   -fusion SPANNING read extraction for scaff: FBXL20--IKZF3

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[92000]   -fusion SPANNING read extraction for scaff: FSBP--VIRMA

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[67000]   
[68000]   -fusion SPANNING read extraction for scaff: GK5--XRN1

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[67000]   -fusion SPANNING read extraction for scaff: HERPUD1--NUP93

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[37000]   -fusion SPANNING read extraction for scaff: HOOK3--CHRNA6

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[174000]   -fusion SPANNING read extraction for scaff: KIAA1549--RNF216

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[96000]   -fusion SPANNING read extraction for scaff: KMT2E--LHFPL3

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[332000]   -fusion SPANNING read extraction for scaff: LAPTM4B--FARP2

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[91000]   -fusion SPANNING read extraction for scaff: LINC00620--FBLN2

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[30000]   -fusion SPANNING read extraction for scaff: MAU2--RN7SL70P

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[153000]   -fusion SPANNING read extraction for scaff: MAU2--SUGP2

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[11000]   -fusion SPANNING read extraction for scaff: MCRIP2--AC007686.4

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[41000]   -fusion SPANNING read extraction for scaff: MOB1A--SEMA4A

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[453000]   -fusion SPANNING read extraction for scaff: MYH9--TXN2

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[126000]   
[127000]   -fusion SPANNING read extraction for scaff: MYO6--SENP6

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[114000]   -fusion SPANNING read extraction for scaff: NFAT5--SNTB2

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[22000]   -fusion SPANNING read extraction for scaff: PARP8--CDH12

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[20000]   -fusion SPANNING read extraction for scaff: PARP8--FP236383.3

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[41000]   
[42000]   -fusion SPANNING read extraction for scaff: PCDHA10--PCDHA13

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[43000]   
[44000]   -fusion SPANNING read extraction for scaff: PCDHA10--PCDHAC1

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[37000]   
[38000]   
[39000]   -fusion SPANNING read extraction for scaff: PCDHA10--PCDHAC2

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[34000]   
[35000]   -fusion SPANNING read extraction for scaff: PDHX--APIP

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[138000]   
[139000]   -fusion SPANNING read extraction for scaff: PDXDC1--UBE3B

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[21000]   -fusion SPANNING read extraction for scaff: PGAP1--HECW2

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[41000]   -fusion SPANNING read extraction for scaff: PIAS2--KCNC4

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[107000]   
[108000]   -fusion SPANNING read extraction for scaff: PIEZO1--ZNF775-AS1

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[16000]   -fusion SPANNING read extraction for scaff: PMP22--AC133561.3

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[16000]   -fusion SPANNING read extraction for scaff: PMP22--AC136932.1

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[154000]   
[155000]   -fusion SPANNING read extraction for scaff: PPL--GLYR1

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[194000]   -fusion SPANNING read extraction for scaff: PUM1--ATP13A2

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[230000]   -fusion SPANNING read extraction for scaff: PUM1--MFAP2

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[31000]   -fusion SPANNING read extraction for scaff: RAB3GAP1--MAP3K19

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[88000]   
[89000]   
[90000]   -fusion SPANNING read extraction for scaff: RAD54B--VIRMA

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[35000]   
[36000]   
[37000]   -fusion SPANNING read extraction for scaff: RASSF8--INTS13

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[49000]   
[50000]   
[51000]   -fusion SPANNING read extraction for scaff: RFC1--SMIM14

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[8000]   
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[67000]   
[68000]   
[69000]   -fusion SPANNING read extraction for scaff: RHPN2--MORN4

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[65000]   
[66000]   
[67000]   
[68000]   -fusion SPANNING read extraction for scaff: RHPN2--CYP2T1P

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[8000]   
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[75000]   
[76000]   
[77000]   
[78000]   
[79000]   
[80000]   
[81000]   -fusion SPANNING read extraction for scaff: RHPN2--PI4K2A

[1000]   
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[6000]   
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[8000]   
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[76000]   
[77000]   
[78000]   
[79000]   
[80000]   
[81000]   
[82000]   
[83000]   
[84000]   -fusion SPANNING read extraction for scaff: SAMD11--TNFRSF4

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[6000]   
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[8000]   
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[78000]   
[79000]   
[80000]   
[81000]   
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[83000]   
[84000]   
[85000]   -fusion SPANNING read extraction for scaff: SIK3--SIDT2

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[8000]   
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[57000]   
[58000]   -fusion SPANNING read extraction for scaff: SIK3--TAGLN

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[8000]   
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[26000]   
[27000]   -fusion SPANNING read extraction for scaff: SNU13--LLPH

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[8000]   
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[47000]   
[48000]   -fusion SPANNING read extraction for scaff: SRPK2--ATXN7L1

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[111000]   
[112000]   -fusion SPANNING read extraction for scaff: TECR--ADGRE5

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[5000]   -fusion SPANNING read extraction for scaff: TIGAR--MYBPC1

[1000]   
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[20000]   -fusion SPANNING read extraction for scaff: TLK2--AC240565.1

[1000]   
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[3000]   
[4000]   -fusion SPANNING read extraction for scaff: TLK2P1--AC110079.1

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[81000]   
[82000]   
[83000]   
[84000]   -fusion SPANNING read extraction for scaff: TNFRSF4--SAMD11

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[6000]   
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[62000]   
[63000]   -fusion SPANNING read extraction for scaff: TPX2--DEFB124

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[28000]   
[29000]   -fusion SPANNING read extraction for scaff: TVP23C--CDRT4

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[60000]   
[61000]   -fusion SPANNING read extraction for scaff: UBN2--KLHL26

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[48000]   
[49000]   -fusion SPANNING read extraction for scaff: UNC45A--BLM

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[202000]   -fusion SPANNING read extraction for scaff: UQCC1--CPNE1

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[27000]   -fusion SPANNING read extraction for scaff: VASH1-AS1--RAB11FIP3

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[115000]   -fusion SPANNING read extraction for scaff: YY1AP1--SLC25A44

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[12000]   -fusion SPANNING read extraction for scaff: ZNF549--ZNF616

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[14000]   -fusion SPANNING read extraction for scaff: ZNF550--ZNF616

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[66000]   -fusion SPANNING read extraction for scaff: ZNF875--PPP6R1
-filtered reads reasons: $VAR1 = {
          'seq similar region alignment' => 50647,
          'lacks exon overlap' => 145298
        };
Execution Time = 10.83 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/get_fusion_SPANNING_reads_from_bam.from_chim_summary.pl --gtf_file /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.gtf --MIN_ALIGN_PER_ID 96 --bam /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam --junction_info /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junction_info --genome_lib_dir ctat_genome_lib_build_dir   > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_span_reads.sam
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/get_fusion_SPANNING_reads_from_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/coalesce_junction_and_spanning_info.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junction_info /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_spanning_info 1  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/coalesce_junction_and_spanning_info.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junction_info /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_spanning_info 1  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/coalesce_junc_n_span.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_EM_runner.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj
EM: Starting log likelihood: -23779.290247
EM: Round [1] log likelihood: -23776.468753
EM: Round [2] log likelihood: -23776.097776
EM: Round [3] log likelihood: -23775.859073
EM: Round [4] log likelihood: -23775.660692
EM: Round [5] log likelihood: -23775.485532
EM: Round [6] log likelihood: -23775.328078
EM: Round [7] log likelihood: -23775.185248
EM: Round [8] log likelihood: -23775.054828
EM: Round [9] log likelihood: -23774.935094
EM: Round [10] log likelihood: -23774.824661
EM: Round [11] log likelihood: -23774.722400
EM: Round [12] log likelihood: -23774.627370
EM: Round [13] log likelihood: -23774.538783
EM: Round [14] log likelihood: -23774.455972
EM: Round [15] log likelihood: -23774.378364
EM: Round [16] log likelihood: -23774.305464
EM: Round [17] log likelihood: -23774.236843
EM: Round [18] log likelihood: -23774.172126
EM: Round [19] log likelihood: -23774.110980
EM: Round [20] log likelihood: -23774.053114
EM: Round [21] log likelihood: -23773.998267
EM: Round [22] log likelihood: -23773.946207
EM: Round [23] log likelihood: -23773.896725
EM: Round [24] log likelihood: -23773.849635
EM: Round [25] log likelihood: -23773.804767
EM: Round [26] log likelihood: -23773.761968
EM: Round [27] log likelihood: -23773.721100
EM: Round [28] log likelihood: -23773.682035
EM: Round [29] log likelihood: -23773.644660
EM: Round [30] log likelihood: -23773.608867
EM: Round [31] log likelihood: -23773.574561
EM: Round [32] log likelihood: -23773.541653
EM: Round [33] log likelihood: -23773.510061
EM: Round [34] log likelihood: -23773.479711
EM: Round [35] log likelihood: -23773.450531
EM: Round [36] log likelihood: -23773.422460
EM: Round [37] log likelihood: -23773.395436
EM: Round [38] log likelihood: -23773.369405
EM: Round [39] log likelihood: -23773.344316
EM: Round [40] log likelihood: -23773.320121
EM: Round [41] log likelihood: -23773.296776
EM: Round [42] log likelihood: -23773.274239
EM: Round [43] log likelihood: -23773.252471
EM: Round [44] log likelihood: -23773.231438
EM: Round [45] log likelihood: -23773.211105
EM: Round [46] log likelihood: -23773.191439
EM: Round [47] log likelihood: -23773.172413
EM: Round [48] log likelihood: -23773.153997
EM: Round [49] log likelihood: -23773.136166
EM: Round [50] log likelihood: -23773.118895
EM: Round [51] log likelihood: -23773.102161
EM: Round [52] log likelihood: -23773.085942
EM: Round [53] log likelihood: -23773.070217
EM: Round [54] log likelihood: -23773.054967
EM: Round [55] log likelihood: -23773.040173
EM: Round [56] log likelihood: -23773.025817
EM: Round [57] log likelihood: -23773.011884
EM: Round [58] log likelihood: -23772.998358
EM: Round [59] log likelihood: -23772.985223
EM: Round [60] log likelihood: -23772.972466
EM: Round [61] log likelihood: -23772.960073
EM: Round [62] log likelihood: -23772.948031
EM: Round [63] log likelihood: -23772.936328
EM: Round [64] log likelihood: -23772.924953
EM: Round [65] log likelihood: -23772.913894
EM: Round [66] log likelihood: -23772.903140
EM: Round [67] log likelihood: -23772.892683
EM: Round [68] log likelihood: -23772.882511
EM: Round [69] log likelihood: -23772.872616
EM: Round [70] log likelihood: -23772.862989
EM: Round [71] log likelihood: -23772.853621
EM: Round [72] log likelihood: -23772.844505
EM: Round [73] log likelihood: -23772.835632
EM: Round [74] log likelihood: -23772.826995
EM: Round [75] log likelihood: -23772.818587
EM: Round [76] log likelihood: -23772.810400
EM: Round [77] log likelihood: -23772.802429
EM: Round [78] log likelihood: -23772.794667
EM: Round [79] log likelihood: -23772.787107
EM: Round [80] log likelihood: -23772.779744
EM: Round [81] log likelihood: -23772.772572
EM: Round [82] log likelihood: -23772.765586
EM: Round [83] log likelihood: -23772.758779
EM: Round [84] log likelihood: -23772.752148
EM: Round [85] log likelihood: -23772.745687
EM: Round [86] log likelihood: -23772.739391
EM: Round [87] log likelihood: -23772.733256
EM: Round [88] log likelihood: -23772.727277
EM: Round [89] log likelihood: -23772.721450
EM: Round [90] log likelihood: -23772.715770
EM: Round [91] log likelihood: -23772.710235
EM: Round [92] log likelihood: -23772.704839
EM: Round [93] log likelihood: -23772.699579
EM: Round [94] log likelihood: -23772.694452
EM: Round [95] log likelihood: -23772.689453
EM: Round [96] log likelihood: -23772.684580
EM: Round [97] log likelihood: -23772.679828
EM: Round [98] log likelihood: -23772.675196
EM: Round [99] log likelihood: -23772.670679
EM: Round [100] log likelihood: -23772.666274
EM: Round [101] log likelihood: -23772.661979
EM: Round [102] log likelihood: -23772.657791
EM: Round [103] log likelihood: -23772.653707
EM: Round [104] log likelihood: -23772.649724
EM: Round [105] log likelihood: -23772.645840
EM: Round [106] log likelihood: -23772.642052
EM: Round [107] log likelihood: -23772.638357
EM: Round [108] log likelihood: -23772.634754
EM: Round [109] log likelihood: -23772.631239
EM: Round [110] log likelihood: -23772.627811
EM: Round [111] log likelihood: -23772.624468
EM: Round [112] log likelihood: -23772.621206
EM: Round [113] log likelihood: -23772.618025
EM: Round [114] log likelihood: -23772.614922
EM: Round [115] log likelihood: -23772.611895
EM: Round [116] log likelihood: -23772.608942
EM: Round [117] log likelihood: -23772.606061
EM: Round [118] log likelihood: -23772.603251
EM: Round [119] log likelihood: -23772.600510
EM: Round [120] log likelihood: -23772.597836
EM: Round [121] log likelihood: -23772.595227
EM: Round [122] log likelihood: -23772.592681
EM: Round [123] log likelihood: -23772.590198
EM: Round [124] log likelihood: -23772.587775
EM: Round [125] log likelihood: -23772.585412
EM: Round [126] log likelihood: -23772.583105
EM: Round [127] log likelihood: -23772.580855
EM: Round [128] log likelihood: -23772.578660
EM: Round [129] log likelihood: -23772.576518
EM: Round [130] log likelihood: -23772.574428
EM: Round [131] log likelihood: -23772.572389
EM: Round [132] log likelihood: -23772.570400
EM: Round [133] log likelihood: -23772.568458
EM: Round [134] log likelihood: -23772.566564
EM: Round [135] log likelihood: -23772.564716
EM: Round [136] log likelihood: -23772.562912
EM: Round [137] log likelihood: -23772.561153
EM: Round [138] log likelihood: -23772.559435
EM: Round [139] log likelihood: -23772.557760
EM: Round [140] log likelihood: -23772.556125
EM: Round [141] log likelihood: -23772.554529
EM: Round [142] log likelihood: -23772.552972
EM: Round [143] log likelihood: -23772.551453
EM: Round [144] log likelihood: -23772.549971
EM: Round [145] log likelihood: -23772.548524
EM: Round [146] log likelihood: -23772.547112
EM: Round [147] log likelihood: -23772.545735
EM: Round [148] log likelihood: -23772.544390
EM: Round [149] log likelihood: -23772.543078
EM: Round [150] log likelihood: -23772.541798
EM: Round [151] log likelihood: -23772.540549
EM: Round [152] log likelihood: -23772.539329
EM: Round [153] log likelihood: -23772.538139
EM: Round [154] log likelihood: -23772.536978
EM: Round [155] log likelihood: -23772.535845
EM: Round [156] log likelihood: -23772.534739
EM: Round [157] log likelihood: -23772.533660
EM: Round [158] log likelihood: -23772.532607
EM: Round [159] log likelihood: -23772.531579
EM: Round [160] log likelihood: -23772.530576
EM: Round [161] log likelihood: -23772.529597
EM: Round [162] log likelihood: -23772.528641
EM: Round [163] log likelihood: -23772.527709
EM: Round [164] log likelihood: -23772.526799
EM: Round [165] log likelihood: -23772.525911
EM: Round [166] log likelihood: -23772.525044
EM: Round [167] log likelihood: -23772.524198
EM: Round [168] log likelihood: -23772.523373
EM: Round [169] log likelihood: -23772.522567
EM: Round [170] log likelihood: -23772.521781
EM: Round [171] log likelihood: -23772.521013
EM: Round [172] log likelihood: -23772.520265
EM: Round [173] log likelihood: -23772.519534
EM: Round [174] log likelihood: -23772.518820
EM: Round [175] log likelihood: -23772.518124
EM: Round [176] log likelihood: -23772.517444
EM: Round [177] log likelihood: -23772.516781
EM: Round [178] log likelihood: -23772.516134
EM: Round [179] log likelihood: -23772.515502
EM: Round [180] log likelihood: -23772.514885
EM: Round [181] log likelihood: -23772.514284
EM: Round [182] log likelihood: -23772.513696
EM: Round [183] log likelihood: -23772.513123
EM: Round [184] log likelihood: -23772.512564
EM: Round [185] log likelihood: -23772.512017
EM: Round [186] log likelihood: -23772.511485
EM: Round [187] log likelihood: -23772.510964
EM: Round [188] log likelihood: -23772.510457
EM: Round [189] log likelihood: -23772.509961
EM: Round [190] log likelihood: -23772.509478
EM: Round [191] log likelihood: -23772.509005
EM: Round [192] log likelihood: -23772.508545
EM: Round [193] log likelihood: -23772.508095
EM: Round [194] log likelihood: -23772.507656
EM: Round [195] log likelihood: -23772.507228
EM: Round [196] log likelihood: -23772.506810
EM: Round [197] log likelihood: -23772.506402
EM: Round [198] log likelihood: -23772.506003
EM: Round [199] log likelihood: -23772.505615
EM: Round [200] log likelihood: -23772.505235
EM: Round [201] log likelihood: -23772.504865
EM: Round [202] log likelihood: -23772.504503
EM: Round [203] log likelihood: -23772.504151
EM: Round [204] log likelihood: -23772.503806
EM: Round [205] log likelihood: -23772.503470
EM: Round [206] log likelihood: -23772.503142
EM: Round [207] log likelihood: -23772.502822
EM: Round [208] log likelihood: -23772.502510
EM: Round [209] log likelihood: -23772.502205
EM: Round [210] log likelihood: -23772.501907
EM: Round [211] log likelihood: -23772.501616
EM: Round [212] log likelihood: -23772.501333
EM: Round [213] log likelihood: -23772.501056
EM: Round [214] log likelihood: -23772.500786
EM: Round [215] log likelihood: -23772.500522
EM: Round [216] log likelihood: -23772.500264
EM: Round [217] log likelihood: -23772.500013
EM: Round [218] log likelihood: -23772.499768
EM: Round [219] log likelihood: -23772.499529
EM: Round [220] log likelihood: -23772.499295
EM: Round [221] log likelihood: -23772.499067
EM: Round [222] log likelihood: -23772.498844
EM: Round [223] log likelihood: -23772.498627
EM: Round [224] log likelihood: -23772.498415
EM: Round [225] log likelihood: -23772.498208
EM: Round [226] log likelihood: -23772.498006
EM: Round [227] log likelihood: -23772.497809
EM: Round [228] log likelihood: -23772.497616
EM: Round [229] log likelihood: -23772.497429
EM: Round [230] log likelihood: -23772.497245
EM: Round [231] log likelihood: -23772.497066
EM: Round [232] log likelihood: -23772.496892
EM: Round [233] log likelihood: -23772.496721
EM: Round [234] log likelihood: -23772.496555
EM: Round [235] log likelihood: -23772.496392
EM: Round [236] log likelihood: -23772.496234
EM: Round [237] log likelihood: -23772.496079
EM: Round [238] log likelihood: -23772.495928
EM: Round [239] log likelihood: -23772.495780
EM: Round [240] log likelihood: -23772.495636
EM: Round [241] log likelihood: -23772.495496
EM: Round [242] log likelihood: -23772.495359
EM: Round [243] log likelihood: -23772.495225
EM: Round [244] log likelihood: -23772.495094
EM: Round [245] log likelihood: -23772.494967
EM: Round [246] log likelihood: -23772.494842
EM: Round [247] log likelihood: -23772.494721
EM: Round [248] log likelihood: -23772.494602
EM: Round [249] log likelihood: -23772.494487
EM: Round [250] log likelihood: -23772.494374
EM: Round [251] log likelihood: -23772.494263
EM: Round [252] log likelihood: -23772.494156
EM: Round [253] log likelihood: -23772.494051
EM: Round [254] log likelihood: -23772.493948
EM: Round [255] log likelihood: -23772.493848
EM: Round [256] log likelihood: -23772.493750
EM: Stopping iterations at round 256 due to insufficient improvement in likelihood.
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_EM_runner.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/init_EM_adj_counts.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/filter_fusions_by_frag_thresholds.pl --min_junction_reads 0 --min_sum_frags 1 --min_novel_junction_support 3 --min_spanning_frags_only 5 --fusion_preds /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj --require_LDAS 1 > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/filter_fusions_by_frag_thresholds.pl --min_junction_reads 0 --min_sum_frags 1 --min_novel_junction_support 3 --min_spanning_frags_only 5 --fusion_preds /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj --require_LDAS 1 > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/filter_by_frag_threshs.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/column_extractions.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary LeftGene,RightGene,JunctionReads  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_junction_read_accs
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/column_extractions.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary LeftGene,RightGene,JunctionReads  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_junction_read_accs
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/prep_igv_extract_junc_reads.ok
Running: bash -c "set -eof pipefail; /usr/local/src/STAR-Fusion/FusionInspector/util/retrieve_fusion_junction_reads_by_accession.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_junction_read_accs /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junc_reads.sam | samtools view -@ 8 -bT /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa -  | samtools sort -@ 8 - -o /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam"
[bam_sort_core] merging from 0 files and 8 in-memory blocks...
Execution Time = 0.00 minutes. CMD: bash -c "set -eof pipefail; /usr/local/src/STAR-Fusion/FusionInspector/util/retrieve_fusion_junction_reads_by_accession.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_junction_read_accs /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_junc_reads.sam | samtools view -@ 8 -bT /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa -  | samtools sort -@ 8 - -o /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam"
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/prep_igv_junc_reads_bam.ok
Running: samtools index /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam
Execution Time = 0.00 minutes. CMD: samtools index /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/samtools_idx_junc_reads_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_pair_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_pair_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bam_to_bed.ok
Running: sort -k1,1 -k2,2n /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: sort -k1,1 -k2,2n /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bedsort.ok
Running: bgzip -f /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: bgzip -f /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bgzip.ok
Running: tabix -p bed /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed.gz
Execution Time = 0.00 minutes. CMD: tabix -p bed /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.bed.sorted.bed.gz
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.junction_reads.bam.tabix.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/column_extractions.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary LeftGene,RightGene,SpanningFrags  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_spanning_read_accs
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/column_extractions.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary LeftGene,RightGene,SpanningFrags  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_spanning_read_accs
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/span_reads_acc.ok
Running: samtools view -H /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam -b -o /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam
Execution Time = 0.00 minutes. CMD: samtools view -H /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam -b -o /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/init_spanning_reads_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/retrieve_fusion_spanning_reads_by_accession.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_spanning_read_accs /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_span_reads.sam | samtools view -@ 8 -bT /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa -  | samtools sort -@ 8 - -o /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam || : 
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/retrieve_fusion_spanning_reads_by_accession.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.fusion_spanning_read_accs /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam.fusion_span_reads.sam | samtools view -@ 8 -bT /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa -  | samtools sort -@ 8 - -o /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam || : 
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/prep_spanning_reads.ok
Running: samtools index /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam
Execution Time = 0.00 minutes. CMD: samtools index /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/samtools_index_span_reads_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_pair_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_pair_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bam_to_bed.ok
Running: sort -k1,1 -k2,2n /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: sort -k1,1 -k2,2n /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bedsort.ok
Running: bgzip -f /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed
Execution Time = 0.00 minutes. CMD: bgzip -f /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bgzip.ok
Running: tabix -p bed /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed.gz
Execution Time = 0.00 minutes. CMD: tabix -p bed /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.bed.sorted.bed.gz
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/tih_rna_sample_00480_B23WHTKLT4_1.spanning_reads.bam.tabix.ok
Running: cp /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam
Execution Time = 0.00 minutes. CMD: cp /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.star.cSorted.dupsMarked.bam /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/cp_consol_bam.ok
Running: samtools index /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam
Execution Time = 0.07 minutes. CMD: samtools index /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/index_consol_bam.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_to_frag_coords.pl --sam /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam --max_insert_size 10000000 
-extracting read coordinates from /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam into /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam.read_coords

CMD: touch /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam.read_coords.ok
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k2,2 -k4,4n /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam.read_coords > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam.read_coords.sort_by_readname
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k3,3n /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam.frag_coords > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam.frag_coords.coord_sorted
Execution Time = 1.80 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/SAM_to_frag_coords.pl --sam /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam --max_insert_size 10000000 
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/prep_igv_sam_frag_coordss.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_summary_to_igv_JuncSpan_fmt.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam.frag_coords > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.FusionJuncSpan
Execution Time = 0.03 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_summary_to_igv_JuncSpan_fmt.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.consolidated.bam.frag_coords > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.FusionJuncSpan
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/prep_igv_juncspan_fmt.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/get_pfam_domain_info.pl --finspector_gtf /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf  --genome_lib_dir ctat_genome_lib_build_dir  > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.Pfam.gff3 
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/get_pfam_domain_info.pl --finspector_gtf /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf  --genome_lib_dir ctat_genome_lib_build_dir  > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.Pfam.gff3 
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/prep_igv_pfam_gff3.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/transcript_gff3_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.Pfam.gff3 > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.Pfam.bed
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/transcript_gff3_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.Pfam.gff3 > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.Pfam.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/prep_igv_pfam_bed.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/get_seq_similar_region_FI_coordinates.pl --finspector_gtf /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf  --genome_lib_dir ctat_genome_lib_build_dir  > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.seqsimilar.gff3 
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/get_seq_similar_region_FI_coordinates.pl --finspector_gtf /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf  --genome_lib_dir ctat_genome_lib_build_dir  > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.seqsimilar.gff3 
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/prep_igv_seqsim_gff3.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/transcript_gff3_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.seqsimilar.gff3 > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.seqsimilar.bed
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/transcript_gff3_to_bed.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.seqsimilar.gff3 > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.igv.seqsimilar.bed
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/prep_igv_seqsim_bed.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/append_breakpoint_junction_info_via_FI_contigs.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/append_breakpoint_junction_info_via_FI_contigs.pl /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa > /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/add_splice_info.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/../FusionFilter/blast_and_promiscuity_filter.pl  --fusion_preds /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo --out_prefix /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1 --genome_lib_dir ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 50
CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo --genome_lib_dir ctat_genome_lib_build_dir
CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/promiscuity_filter.pl --fusion_preds /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter  --genome_lib_dir ctat_genome_lib_build_dir  --max_promiscuity 10  --min_pct_dom_promiscuity 50 
CMD: cp /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/../FusionFilter/blast_and_promiscuity_filter.pl  --fusion_preds /tmp/nxf.Tyeu4N0sIR/fi_workdir/tih_rna_sample_00480_B23WHTKLT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo --out_prefix /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1 --genome_lib_dir ctat_genome_lib_build_dir --max_promiscuity 10 --min_pct_dom_promiscuity 50
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/blast_filter.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/../FusionFilter/util/filter_by_annotation_rules.pl  --fusions /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter --genome_lib_dir /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir
-done, see /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/../FusionFilter/util/filter_by_annotation_rules.pl  --fusions /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter --genome_lib_dir /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/annot_filter.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_EM_runner.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj
EM: Starting log likelihood: -23107.740181
EM: Round [1] log likelihood: -23107.160063
EM: Round [2] log likelihood: -23107.154875
EM: Round [3] log likelihood: -23107.154716
EM: Round [4] log likelihood: -23107.154711
EM: Stopping iterations at round 4 due to insufficient improvement in likelihood.
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_EM_runner.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/EM_adj_counts.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/incorporate_FFPM_into_final_report.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM
-total frags in /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1_1.fastp.fastq.gz: 282992258
Execution Time = 5.61 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/incorporate_FFPM_into_final_report.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1_1.fastp.fastq.gz /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/add_FFPM.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/misc/find_microhomologies_by_kmer_matches.pl --fasta /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa --gtf /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/microH.dat
Execution Time = 0.01 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/misc/find_microhomologies_by_kmer_matches.pl --fasta /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fa --gtf /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gtf  > /tmp/nxf.Tyeu4N0sIR/fi_workdir/microH.dat
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/microH.dat.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/misc/append_microH_distance.py /tmp/nxf.Tyeu4N0sIR/fi_workdir/microH.dat /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM  >  /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM.wMicroH
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/misc/append_microH_distance.py /tmp/nxf.Tyeu4N0sIR/fi_workdir/microH.dat /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM  >  /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM.wMicroH
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/append_microH_info.ok
Running: cp /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM.wMicroH /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.tsv
Execution Time = 0.00 minutes. CMD: cp /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.post_blast_and_promiscuity_filter.annot_filter.pass.EMadj.FFPM.wMicroH /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.tsv
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/cp_final.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/column_exclusions.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.tsv JunctionReads,SpanningFrags,CounterFusionLeftReads,CounterFusionRightReads  > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/column_exclusions.pl /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.tsv JunctionReads,SpanningFrags,CounterFusionLeftReads,CounterFusionRightReads  > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/final.abridged.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/util/create_fusion_inspector_igvjs.py --fusion_inspector_directory /tmp/nxf.Tyeu4N0sIR --json_outfile /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fusion_inspector_web.json --file_prefix tih_rna_sample_00480_B23WHTKLT4_1
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/util/create_fusion_inspector_igvjs.py --fusion_inspector_directory /tmp/nxf.Tyeu4N0sIR --json_outfile /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fusion_inspector_web.json --file_prefix tih_rna_sample_00480_B23WHTKLT4_1
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/create_fi_igvjs.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/fusion-reports/create_fusion_report.py --html_template /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_report_html_template/igvjs_fusion.html --fusions_json /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fusion_inspector_web.json --input_file_prefix tih_rna_sample_00480_B23WHTKLT4_1 --html_output /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fusion_inspector_web.html
Warning - not locating file: /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.gmap_trinity_GG.fusions.gff3.bed
Execution Time = 0.04 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/fusion-reports/create_fusion_report.py --html_template /usr/local/src/STAR-Fusion/FusionInspector/util/fusion_report_html_template/igvjs_fusion.html --fusions_json /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fusion_inspector_web.json --input_file_prefix tih_rna_sample_00480_B23WHTKLT4_1 --html_output /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.fusion_inspector_web.html
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/fusion_reports_html.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/FusionAnnotator/FusionAnnotator --annotate /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv  --genome_lib_dir /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated 
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionAnnotator/FusionAnnotator --annotate /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv  --genome_lib_dir /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated 
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/fusion_annotator.ok
Running: /usr/local/src/STAR-Fusion/FusionInspector/FusionAnnotator/util/fusion_to_coding_region_effect.pl --fusions /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated  --genome_lib_dir /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated.coding_effect 
WARNING, no entry stored in dbm for [ENSG00000231185.7]
WARNING, no entry stored in dbm for [ENSG00000231185.7]
WARNING, no entry stored in dbm for [ENSG00000280136.2]
WARNING, no entry stored in dbm for [ENSG00000260318.1]
WARNING, no entry stored in dbm for [ENSG00000260318.1]
WARNING, no entry stored in dbm for [ENSG00000260318.1]
WARNING, no entry stored in dbm for [ENSG00000226049.3]
WARNING, no entry stored in dbm for [ENSG00000260404.3]
WARNING, no entry stored in dbm for [ENSG00000285966.1]
WARNING, no entry stored in dbm for [ENSG00000285966.1]
WARNING, no entry stored in dbm for [ENSG00000224514.3]
WARNING, no entry stored in dbm for [ENSG00000224514.3]
WARNING, no entry stored in dbm for [ENSG00000224514.3]
WARNING, no entry stored in dbm for [ENSG00000224514.3]
WARNING, no entry stored in dbm for [ENSG00000224514.3]
WARNING, no entry stored in dbm for [ENSG00000224514.3]
WARNING, no entry stored in dbm for [ENSG00000239377.1]
WARNING, no entry stored in dbm for [ENSG00000239377.1]
WARNING, no entry stored in dbm for [ENSG00000239377.1]
WARNING, no entry stored in dbm for [ENSG00000258301.3]
WARNING, no entry stored in dbm for [ENSG00000284964.1]
WARNING, no entry stored in dbm for [ENSG00000284964.1]
WARNING, no entry stored in dbm for [ENSG00000284964.1]
WARNING, no entry stored in dbm for [ENSG00000233622.3]
WARNING, no entry stored in dbm for [ENSG00000282057.1]
WARNING, no entry stored in dbm for [ENSG00000282057.1]
WARNING, no entry stored in dbm for [ENSG00000282057.1]
WARNING, no entry stored in dbm for [ENSG00000228327.3]
WARNING, no entry stored in dbm for [ENSG00000228327.3]
WARNING, no entry stored in dbm for [ENSG00000228327.3]
WARNING, no entry stored in dbm for [ENSG00000228327.3]
WARNING, no entry stored in dbm for [ENSG00000259692.6]
WARNING, no entry stored in dbm for [ENSG00000250979.1]
WARNING, no entry stored in dbm for [ENSG00000280441.3]
Execution Time = 0.00 minutes. CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionAnnotator/util/fusion_to_coding_region_effect.pl --fusions /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated  --genome_lib_dir /tmp/nxf.Tyeu4N0sIR/ctat_genome_lib_build_dir > /tmp/nxf.Tyeu4N0sIR/tih_rna_sample_00480_B23WHTKLT4_1.FusionInspector.fusions.abridged.tsv.annotated.coding_effect 
Running: touch /tmp/nxf.Tyeu4N0sIR/chckpts_dir/fusion_coding_region_effect.ok
ls: cannot access 'IGV_inputs': No such file or directory