.command.err - Workdir - NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR (659_dts-T1-TRNA-1_B23MHV2LT4_1)

File Info

Filename: .command.err
Full Path: s3://natera-rnd-pltf-dev-nextflow-scratch-01/work/da/6e49817847e0ef514755e2cd647a4c/.command.err
Size: 116.6 KB
Task: NFCORE_RNAFUSION:RNAFUSION:FUSIONINSPECTOR_WORKFLOW:FUSIONINSPECTOR (659_dts-T1-TRNA-1_B23MHV2LT4_1)
Attempt
Content

Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067865	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 1; exon_id "ENSE00001380487.6"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067865,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076132	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57075987	57076132	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075987,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57082143	57082200	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 3; exon_id "ENSE00003563079.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57082143	57082200	.	+	1	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 3; exon_id "ENSE00003563079.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 4; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57084632	57084769	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 4; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 5; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57087017	57087107	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 5; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 6; exon_id "ENSE00003506587.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57106333	57106400	.	+	2	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 6; exon_id "ENSE00003506587.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 7; exon_id "ENSE00003552457.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57126221	57126313	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 7; exon_id "ENSE00003552457.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57130289	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 8; exon_id "ENSE00003571718.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57130289,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57128403	57128468	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 8; exon_id "ENSE00003571718.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128468,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067878	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 1; exon_id "ENSE00001924404.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067878,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076153	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 2; exon_id "ENSE00001911425.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076153,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57082143	57082200	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 3; exon_id "ENSE00003633861.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 4; exon_id "ENSE00003632546.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 5; exon_id "ENSE00003651345.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 6; exon_id "ENSE00003630420.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 7; exon_id "ENSE00003464457.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57128429	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 8; exon_id "ENSE00001863656.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128429,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067880	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 1; exon_id "ENSE00001863306.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067880,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076132	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57075987	57076132	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075987,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 3; exon_id "ENSE00003570935.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57084632	57084662	.	+	1	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 3; exon_id "ENSE00003570935.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084662,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 4; exon_id "ENSE00003651345.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 5; exon_id "ENSE00003630420.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 6; exon_id "ENSE00003464457.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57128464	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 7; exon_id "ENSE00001937215.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128464,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067892	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 1; exon_id "ENSE00001827472.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067892,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076128	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 2; exon_id "ENSE00001812034.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076128,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57082143	57082200	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 3; exon_id "ENSE00003633861.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 4; exon_id "ENSE00003632546.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 5; exon_id "ENSE00003651345.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 6; exon_id "ENSE00003630420.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126310	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 7; exon_id "ENSE00001814899.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126310,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067895	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 1; exon_id "ENSE00001922926.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067895,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076132	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57075987	57076132	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075987,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57082143	57082200	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 3; exon_id "ENSE00003563079.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57082143	57082200	.	+	1	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 3; exon_id "ENSE00003563079.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 4; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57084632	57084769	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 4; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 5; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57087017	57087107	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 5; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 6; exon_id "ENSE00003532205.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57126221	57126313	.	+	2	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 6; exon_id "ENSE00003532205.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57130289	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 7; exon_id "ENSE00003478342.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57130289,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57128403	57128656	.	+	2	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 7; exon_id "ENSE00003478342.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128656,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067898	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 1; exon_id "ENSE00001942857.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067898,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076067	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 2; exon_id "ENSE00002051324.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076067,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57075987	57076067	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 2; exon_id "ENSE00002051324.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075987,57076067,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 3; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57084632	57084769	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 3; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 4; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57087017	57087107	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 4; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 5; exon_id "ENSE00003506587.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57106333	57106400	.	+	2	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 5; exon_id "ENSE00003506587.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 6; exon_id "ENSE00003552457.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57126221	57126313	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 6; exon_id "ENSE00003552457.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57128509	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 7; exon_id "ENSE00001843254.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57128403	57128468	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 7; exon_id "ENSE00001843254.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128468,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57015105	57016096	.	-	.	gene_id "AMD1P2^ENSG00000237801.6_PAR_Y"; transcript_id "ENST00000412936.6_PAR_Y"; gene_type "processed_pseudogene"; gene_name "AMD1P2"; transcript_type "processed_pseudogene"; transcript_name "AMD1P2-201"; exon_number 1; exon_id "ENSE00001527118.2"; level 1; transcript_support_level "NA"; hgnc_id "HGNC:460"; ont "PGO:0000004"; tag "pseudo_consens"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000022673.2"; havana_transcript "OTTHUMT00000058816.2"; FI_gene_label "AMD1P2^ENSG00000237801.6_PAR_Y"; orig_coord_info "chrY,57015105,57016096,-";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067865	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 1; exon_id "ENSE00001380487.6"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067865,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076132	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57075987	57076132	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075987,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57082143	57082200	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 3; exon_id "ENSE00003563079.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57082143	57082200	.	+	1	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 3; exon_id "ENSE00003563079.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 4; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57084632	57084769	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 4; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 5; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57087017	57087107	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 5; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 6; exon_id "ENSE00003506587.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57106333	57106400	.	+	2	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 6; exon_id "ENSE00003506587.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 7; exon_id "ENSE00003552457.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57126221	57126313	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 7; exon_id "ENSE00003552457.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57130289	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 8; exon_id "ENSE00003571718.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57130289,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57128403	57128468	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000286448.12_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-202"; exon_number 8; exon_id "ENSE00003571718.1"; level 2; protein_id "ENSP00000286448.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "MANE_Select"; tag "appris_principal_1"; tag "CCDS"; tag "PAR"; ccdsid "CCDS14770.4"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058843.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128468,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067878	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 1; exon_id "ENSE00001924404.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067878,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076153	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 2; exon_id "ENSE00001911425.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076153,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57082143	57082200	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 3; exon_id "ENSE00003633861.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 4; exon_id "ENSE00003632546.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 5; exon_id "ENSE00003651345.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 6; exon_id "ENSE00003630420.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 7; exon_id "ENSE00003464457.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57128429	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000479687.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-205"; exon_number 8; exon_id "ENSE00001863656.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058844.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128429,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067880	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 1; exon_id "ENSE00001863306.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067880,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076132	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57075987	57076132	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075987,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 3; exon_id "ENSE00003570935.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57084632	57084662	.	+	1	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 3; exon_id "ENSE00003570935.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084662,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 4; exon_id "ENSE00003651345.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 5; exon_id "ENSE00003630420.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 6; exon_id "ENSE00003464457.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57128464	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000488344.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "nonsense_mediated_decay"; transcript_name "VAMP7-206"; exon_number 7; exon_id "ENSE00001937215.1"; level 2; protein_id "ENSP00000430039.1"; transcript_support_level "2"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058846.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128464,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067892	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 1; exon_id "ENSE00001827472.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067892,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076128	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 2; exon_id "ENSE00001812034.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076128,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57082143	57082200	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 3; exon_id "ENSE00003633861.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 4; exon_id "ENSE00003632546.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 5; exon_id "ENSE00003651345.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 6; exon_id "ENSE00003630420.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126310	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000463317.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "processed_transcript"; transcript_name "VAMP7-204"; exon_number 7; exon_id "ENSE00001814899.1"; level 2; transcript_support_level "5"; hgnc_id "HGNC:11486"; tag "PAR"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058845.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126310,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067895	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 1; exon_id "ENSE00001922926.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067895,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076132	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57075987	57076132	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 2; exon_id "ENSE00002096759.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075987,57076132,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57082143	57082200	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 3; exon_id "ENSE00003563079.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57082143	57082200	.	+	1	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 3; exon_id "ENSE00003563079.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57082143,57082200,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 4; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57084632	57084769	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 4; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 5; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57087017	57087107	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 5; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 6; exon_id "ENSE00003532205.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57126221	57126313	.	+	2	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 6; exon_id "ENSE00003532205.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57130289	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 7; exon_id "ENSE00003478342.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57130289,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57128403	57128656	.	+	2	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000262640.11_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-201"; exon_number 7; exon_id "ENSE00003478342.1"; level 2; protein_id "ENSP00000262640.6"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS55548.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058842.1"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128656,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57067898	57067968	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 1; exon_id "ENSE00001942857.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57067898,57067968,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57075978	57076067	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 2; exon_id "ENSE00002051324.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075978,57076067,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57075987	57076067	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 2; exon_id "ENSE00002051324.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57075987,57076067,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57084632	57084769	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 3; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57084632	57084769	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 3; exon_id "ENSE00003469069.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57084632,57084769,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57087017	57087107	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 4; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57087017	57087107	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 4; exon_id "ENSE00003525378.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57087017,57087107,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57106333	57106400	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 5; exon_id "ENSE00003506587.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57106333	57106400	.	+	2	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 5; exon_id "ENSE00003506587.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57106333,57106400,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57126221	57126313	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 6; exon_id "ENSE00003552457.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57126221	57126313	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 6; exon_id "ENSE00003552457.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57126221,57126313,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57128403	57128509	.	+	.	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 7; exon_id "ENSE00001843254.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128509,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	CDS	57128403	57128468	.	+	0	gene_id "VAMP7^ENSG00000124333.16_PAR_Y"; transcript_id "ENST00000460621.6_PAR_Y"; gene_type "protein_coding"; gene_name "VAMP7"; transcript_type "protein_coding"; transcript_name "VAMP7-203"; exon_number 7; exon_id "ENSE00001843254.1"; level 2; protein_id "ENSP00000427822.1"; transcript_support_level "1"; hgnc_id "HGNC:11486"; tag "basic"; tag "CCDS"; tag "PAR"; ccdsid "CCDS48199.1"; havana_gene "OTTHUMG00000022679.3"; havana_transcript "OTTHUMT00000058847.2"; FI_gene_label "VAMP7^ENSG00000124333.16_PAR_Y"; orig_coord_info "chrY,57128403,57128468,+";
Error, chr discrepancy in gtf info for chrY	HAVANA	exon	57062156	57062405	.	+	.	gene_id "DPH3P2^ENSG00000237040.6_PAR_Y"; transcript_id "ENST00000422618.6_PAR_Y"; gene_type "processed_pseudogene"; gene_name "DPH3P2"; transcript_type "processed_pseudogene"; transcript_name "DPH3P2-201"; exon_number 1; exon_id "ENSE00001793131.1"; level 1; transcript_support_level "NA"; hgnc_id "HGNC:38719"; ont "PGO:0000004"; tag "pseudo_consens"; tag "basic"; tag "PAR"; havana_gene "OTTHUMG00000022680.1"; havana_transcript "OTTHUMT00000058848.1"; FI_gene_label "DPH3P2^ENSG00000237040.6_PAR_Y"; orig_coord_info "chrY,57062156,57062405,+";
Done.
-parsing GTF file: /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.gtf
* Running CMD: /usr/local/bin/STAR  --runThreadN 8  --genomeDir /tmp/nxf.N3BzZD0rMk/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.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1_1.fastp.fastq.gz /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1_2.fastp.fastq.gz  --genomeFastaFiles /tmp/nxf.N3BzZD0rMk/fi_workdir/659_dts-T1-TRNA-1_B23MHV2LT4_1.fa  --outSAMfilter KeepAllAddedReferences  --sjdbGTFfile /tmp/nxf.N3BzZD0rMk/fi_workdir/659_dts-T1-TRNA-1_B23MHV2LT4_1.gtf  --alignSJstitchMismatchNmax 5 -1 5 5  --scoreGapNoncan -6  --readFilesCommand 'gunzip -c' 
* Running CMD: mv Aligned.sortedByCoord.out.bam 659_dts-T1-TRNA-1_B23MHV2LT4_1.star.sortedByCoord.out.bam
* Running CMD: samtools index 659_dts-T1-TRNA-1_B23MHV2LT4_1.star.sortedByCoord.out.bam
11:13:35 : INFO : Done.
-parsing GTF file: /tmp/nxf.N3BzZD0rMk/fi_workdir/659_dts-T1-TRNA-1_B23MHV2LT4_1.gtf
-parsing /tmp/nxf.N3BzZD0rMk/fi_workdir/659_dts-T1-TRNA-1_B23MHV2LT4_1.star.cSorted.dupsMarked.bam

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[2230000]   -done parsing /tmp/nxf.N3BzZD0rMk/fi_workdir/659_dts-T1-TRNA-1_B23MHV2LT4_1.star.cSorted.dupsMarked.bam.  Extracting junction info.
junction read elimination tally: $VAR1 = {
          'num_hits: 2 != num_counted_on_fusion_contigs 1 ' => 146,
          'low complexity anchor region' => 7,
          'seq-similar region overlap' => 17,
          'num_hits: 5 != num_counted_on_fusion_contigs 3 ' => 3,
          'num genes matched < 2' => 9,
          'small anchor length' => 14,
          'num_hits: 6 != num_counted_on_fusion_contigs 3 ' => 9,
          'num_hits: 6 != num_counted_on_fusion_contigs 5 ' => 5,
          'num_hits: 5 != num_counted_on_fusion_contigs 4 ' => 4,
          'per_id < 96' => 9727,
          'num_hits: 4 != num_counted_on_fusion_contigs 3 ' => 18,
          'num_hits: 4 != num_counted_on_fusion_contigs 2 ' => 118,
          'num_hits: 3 != num_counted_on_fusion_contigs 1 ' => 23,
          'num_hits: 3 != num_counted_on_fusion_contigs 2 ' => 22,
          'num_hits: 6 != num_counted_on_fusion_contigs 4 ' => 16,
          ' ** passed ** ' => 8604,
          'num_hits: 6 != num_counted_on_fusion_contigs 2 ' => 2,
          'excessive soft clipping' => 15185
        };
-writing fusion junction support info.
-outputting the spanning read info: /tmp/nxf.N3BzZD0rMk/fi_workdir/659_dts-T1-TRNA-1_B23MHV2LT4_1.star.cSorted.dupsMarked.bam.fusion_spanning_info.
 - counting read alignments among fusion contigs.

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[12000]   -fusion SPANNING read extraction for scaff: AC243829.5--AC233699.1

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[37000]   -fusion SPANNING read extraction for scaff: BTBD9--BAGE2

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[31000]   -fusion SPANNING read extraction for scaff: BTBD9--CU104787.1

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[286000]   -fusion SPANNING read extraction for scaff: CTNND1--DENND10

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[317000]   -fusion SPANNING read extraction for scaff: CTNND1--CLDN12

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[25000]   -fusion SPANNING read extraction for scaff: DCAF12--AL354989.2

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[77000]   
[78000]   -fusion SPANNING read extraction for scaff: DCAF12--UBAP1

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[91000]   
[92000]   -fusion SPANNING read extraction for scaff: FOXO3--RFLNA

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[79000]   -fusion SPANNING read extraction for scaff: GTF2IRD2--STEAP1

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[19000]   -fusion SPANNING read extraction for scaff: IFT74--TUSC1

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[13000]   -fusion SPANNING read extraction for scaff: IFT74--LINC01241

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[414000]   -fusion SPANNING read extraction for scaff: KIF5B--RET

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[19000]   -fusion SPANNING read extraction for scaff: MED19--AC024405.2

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[36000]   -fusion SPANNING read extraction for scaff: MED19--CD6

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[19000]   -fusion SPANNING read extraction for scaff: MED19--AP003721.2

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[7000]   -fusion SPANNING read extraction for scaff: MRPL48--FAM86C1P

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[34000]   -fusion SPANNING read extraction for scaff: PCDHA4--PCDHAC1

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[31000]   
[32000]   
[33000]   
[34000]   
[35000]   
[36000]   
[37000]   
[38000]   -fusion SPANNING read extraction for scaff: PCDHA4--PCDHAC2

[1000]   
[2000]   
[3000]   
[4000]   
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[8000]   
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[13000]   
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[25000]   
[26000]   
[27000]   
[28000]   
[29000]   
[30000]   
[31000]   
[32000]   
[33000]   -fusion SPANNING read extraction for scaff: PCDHA4--PCDHA13

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA8

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   
[13000]   
[14000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA10

[1000]   
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[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
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[11000]   
[12000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB6

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC5

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC4

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA11

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   
[13000]   
[14000]   
[15000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA12

[1000]   
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[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   
[13000]   
[14000]   
[15000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB7

[1000]   
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[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA9

[1000]   
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[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
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[11000]   
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[38000]   
[39000]   
[40000]   
[41000]   
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[46000]   
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[55000]   
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[61000]   
[62000]   
[63000]   
[64000]   
[65000]   
[66000]   
[67000]   
[68000]   
[69000]   
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[72000]   
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[74000]   
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[76000]   
[77000]   
[78000]   
[79000]   
[80000]   
[81000]   
[82000]   
[83000]   
[84000]   
[85000]   
[86000]   
[87000]   
[88000]   
[89000]   
[90000]   
[91000]   -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC3

[1000]   
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[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
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[20000]   
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[34000]   
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[37000]   
[38000]   
[39000]   
[40000]   
[41000]   
[42000]   
[43000]   
[44000]   
[45000]   
[46000]   
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[48000]   
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[50000]   
[51000]   
[52000]   
[53000]   
[54000]   
[55000]   
[56000]   
[57000]   
[58000]   
[59000]   
[60000]   
[61000]   
[62000]   
[63000]   
[64000]   
[65000]   
[66000]   -fusion SPANNING read extraction for scaff: PDLIM5--AC093815.1

[1000]   
[2000]   
[3000]   
[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
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[11000]   
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[52000]   
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[60000]   
[61000]   
[62000]   
[63000]   
[64000]   
[65000]   
[66000]   
[67000]   
[68000]   
[69000]   -fusion SPANNING read extraction for scaff: PDLIM5--UGT8

[1000]   
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[4000]   
[5000]   
[6000]   
[7000]   
[8000]   
[9000]   
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[11000]   
[12000]   
[13000]   
[14000]   
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[30000]   
[31000]   
[32000]   
[33000]   
[34000]   
[35000]   
[36000]   
[37000]   
[38000]   
[39000]   -fusion SPANNING read extraction for scaff: SNU13--LLPH

[1000]   
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[6000]   
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[8000]   
[9000]   
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[11000]   
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[13000]   
[14000]   
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[16000]   
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[30000]   
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[33000]   
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[35000]   
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[37000]   
[38000]   
[39000]   
[40000]   
[41000]   
[42000]   
[43000]   
[44000]   
[45000]   
[46000]   -fusion SPANNING read extraction for scaff: SP110--MTRNR2L12

[1000]   
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[4000]   
[5000]   
[6000]   
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[8000]   
[9000]   
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[30000]   
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[33000]   
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[36000]   
[37000]   
[38000]   
[39000]   
[40000]   
[41000]   
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[79000]   
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[81000]   
[82000]   
[83000]   
[84000]   
[85000]   
[86000]   
[87000]   
[88000]   
[89000]   
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[91000]   
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[102000]   
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[108000]   
[109000]   
[110000]   
[111000]   
[112000]   
[113000]   
[114000]   
[115000]   -fusion SPANNING read extraction for scaff: STIP1--CCDC88B

[1000]   
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[8000]   
[9000]   
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[11000]   
[12000]   
[13000]   
[14000]   
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[16000]   
[17000]   -fusion SPANNING read extraction for scaff: TBP--ATXN3

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[33000]   
[34000]   
[35000]   
[36000]   
[37000]   -fusion SPANNING read extraction for scaff: TLK2--FAM157A

[1000]   
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[16000]   
[17000]   
[18000]   
[19000]   
[20000]   
[21000]   
[22000]   
[23000]   
[24000]   -fusion SPANNING read extraction for scaff: TVP23C--CDRT4

[1000]   
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[6000]   
[7000]   
[8000]   
[9000]   
[10000]   
[11000]   
[12000]   
[13000]   
[14000]   
[15000]   -fusion SPANNING read extraction for scaff: VAMP7--AMD1P2

[1000]   
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[6000]   
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[8000]   
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[13000]   
[14000]   
[15000]   -fusion SPANNING read extraction for scaff: VAMP7--DPH3P2
-filtered reads reasons: $VAR1 = {
          'lacks exon overlap' => 38870,
          'seq similar region alignment' => 18580
        };
EM: Starting log likelihood: -5664.089740
EM: Round [1] log likelihood: -5657.097825
EM: Round [2] log likelihood: -5655.817397
EM: Round [3] log likelihood: -5655.444142
EM: Round [4] log likelihood: -5655.305057
EM: Round [5] log likelihood: -5655.245242
EM: Round [6] log likelihood: -5655.217352
EM: Round [7] log likelihood: -5655.203741
EM: Round [8] log likelihood: -5655.196921
EM: Round [9] log likelihood: -5655.193450
EM: Round [10] log likelihood: -5655.191667
EM: Round [11] log likelihood: -5655.190746
EM: Round [12] log likelihood: -5655.190269
EM: Round [13] log likelihood: -5655.190021
EM: Round [14] log likelihood: -5655.189892
EM: Round [15] log likelihood: -5655.189825
EM: Stopping iterations at round 15 due to insufficient improvement in likelihood.
[bam_sort_core] merging from 0 files and 8 in-memory blocks...
-extracting read coordinates from /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.consolidated.bam into /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.consolidated.bam.read_coords

CMD: touch /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.consolidated.bam.read_coords.ok
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k2,2 -k4,4n /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.consolidated.bam.read_coords > /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.consolidated.bam.read_coords.sort_by_readname
CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k3,3n /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.consolidated.bam.frag_coords > /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.consolidated.bam.frag_coords.coord_sorted
CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.N3BzZD0rMk/fi_workdir/659_dts-T1-TRNA-1_B23MHV2LT4_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.N3BzZD0rMk/fi_workdir/659_dts-T1-TRNA-1_B23MHV2LT4_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.N3BzZD0rMk/fi_workdir/659_dts-T1-TRNA-1_B23MHV2LT4_1.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.post_blast_and_promiscuity_filter
-done, see /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.post_blast_and_promiscuity_filter.annot_filter.pass
EM: Starting log likelihood: -5028.968978
EM: Round [1] log likelihood: -5027.931373
EM: Round [2] log likelihood: -5027.895208
EM: Round [3] log likelihood: -5027.893798
EM: Round [4] log likelihood: -5027.893741
EM: Stopping iterations at round 4 due to insufficient improvement in likelihood.
-total frags in /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1_1.fastp.fastq.gz: 295275305
Warning - not locating file: /tmp/nxf.N3BzZD0rMk/659_dts-T1-TRNA-1_B23MHV2LT4_1.gmap_trinity_GG.fusions.gff3.bed
WARNING, no entry stored in dbm for [ENSG00000236438.7]
WARNING, no entry stored in dbm for [ENSG00000254840.1]
WARNING, no entry stored in dbm for [ENSG00000158483.17]
WARNING, no entry stored in dbm for [ENSG00000158483.17]
WARNING, no entry stored in dbm for [ENSG00000158483.17]
WARNING, no entry stored in dbm for [ENSG00000158483.17]
WARNING, no entry stored in dbm for [ENSG00000187172.15]
WARNING, no entry stored in dbm for [ENSG00000187172.15]
WARNING, no entry stored in dbm for [ENSG00000278097.1]
WARNING, no entry stored in dbm for [ENSG00000261499.2]
WARNING, no entry stored in dbm for [ENSG00000279973.2]
WARNING, no entry stored in dbm for [ENSG00000279973.2]
ls: cannot access 'IGV_inputs': No such file or directory