Done. -parsing GTF file: /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.gtf * Running CMD: /usr/local/bin/STAR --runThreadN 8 --genomeDir /tmp/nxf.60NnR2N0ks/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.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2_1.fastp.fastq.gz /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2_2.fastp.fastq.gz --genomeFastaFiles /tmp/nxf.60NnR2N0ks/fi_workdir/tih_rna_sample_00479_B23WHTKLT4_2.fa --outSAMfilter KeepAllAddedReferences --sjdbGTFfile /tmp/nxf.60NnR2N0ks/fi_workdir/tih_rna_sample_00479_B23WHTKLT4_2.gtf --alignSJstitchMismatchNmax 5 -1 5 5 --scoreGapNoncan -6 --readFilesCommand 'gunzip -c' * Running CMD: mv Aligned.sortedByCoord.out.bam tih_rna_sample_00479_B23WHTKLT4_2.star.sortedByCoord.out.bam * Running CMD: samtools index tih_rna_sample_00479_B23WHTKLT4_2.star.sortedByCoord.out.bam 10:23:33 : INFO : Done. -parsing GTF file: /tmp/nxf.60NnR2N0ks/fi_workdir/tih_rna_sample_00479_B23WHTKLT4_2.gtf -parsing /tmp/nxf.60NnR2N0ks/fi_workdir/tih_rna_sample_00479_B23WHTKLT4_2.star.cSorted.dupsMarked.bam [10000] [20000] [30000] [40000] [50000] [60000] [70000] [80000] [90000] [100000] [110000] [120000] [130000] [140000] [150000] [160000] [170000] [180000] [190000] [200000] [210000] [220000] [230000] [240000] [250000] [260000] [270000] [280000] [290000] [300000] [310000] [320000] [330000] [340000] [350000] [360000] [370000] [380000] [390000] [400000] [410000] [420000] [430000] [440000] [450000] [460000] [470000] [480000] [490000] [500000] [510000] [520000] [530000] [540000] [550000] [560000] [570000] [580000] [590000] [600000] [610000] [620000] [630000] [640000] [650000] [660000] [670000] [680000] [690000] [700000] [710000] [720000] [730000] [740000] [750000] [760000] [770000] [780000] [790000] [800000] [810000] [820000] [830000] [840000] [850000] [860000] [870000] [880000] [890000] [900000] [910000] [920000] [930000] [940000] [950000] [960000] [970000] [980000] [990000] [1000000] [1010000] [1020000] [1030000] [1040000] [1050000] [1060000] [1070000] [1080000] [1090000] [1100000] [1110000] [1120000] [1130000] [1140000] [1150000] [1160000] [1170000] [1180000] [1190000] [1200000] [1210000] [1220000] [1230000] [1240000] [1250000] [1260000] [1270000] [1280000] [1290000] [1300000] [1310000] [1320000] [1330000] [1340000] [1350000] [1360000] [1370000] [1380000] [1390000] [1400000] [1410000] [1420000] [1430000] [1440000] [1450000] [1460000] [1470000] [1480000] [1490000] [1500000] [1510000] [1520000] [1530000] [1540000] [1550000] [1560000] [1570000] [1580000] [1590000] [1600000] [1610000] [1620000] [1630000] [1640000] [1650000] [1660000] [1670000] [1680000] [1690000] [1700000] [1710000] [1720000] [1730000] [1740000] [1750000] [1760000] [1770000] [1780000] [1790000] [1800000] [1810000] [1820000] [1830000] [1840000] [1850000] [1860000] [1870000] [1880000] [1890000] [1900000] [1910000] [1920000] [1930000] [1940000] [1950000] [1960000] [1970000] [1980000] [1990000] [2000000] [2010000] [2020000] [2030000] [2040000] [2050000] [2060000] [2070000] [2080000] [2090000] [2100000] [2110000] [2120000] [2130000] [2140000] [2150000] [2160000] [2170000] [2180000] [2190000] [2200000] [2210000] [2220000] [2230000] [2240000] [2250000] [2260000] [2270000] [2280000] [2290000] [2300000] [2310000] [2320000] [2330000] [2340000] [2350000] [2360000] [2370000] [2380000] [2390000] [2400000] [2410000] [2420000] [2430000] [2440000] [2450000] [2460000] [2470000] [2480000] [2490000] [2500000] [2510000] [2520000] [2530000] [2540000] [2550000] [2560000] [2570000] [2580000] [2590000] [2600000] [2610000] [2620000] [2630000] [2640000] [2650000] [2660000] [2670000] [2680000] [2690000] [2700000] [2710000] [2720000] [2730000] [2740000] [2750000] [2760000] [2770000] [2780000] [2790000] [2800000] [2810000] [2820000] [2830000] [2840000] [2850000] [2860000] [2870000] [2880000] [2890000] [2900000] [2910000] [2920000] [2930000] [2940000] [2950000] [2960000] [2970000] [2980000] [2990000] [3000000] [3010000] [3020000] [3030000] [3040000] [3050000] [3060000] [3070000] [3080000] [3090000] [3100000] [3110000] [3120000] -done parsing /tmp/nxf.60NnR2N0ks/fi_workdir/tih_rna_sample_00479_B23WHTKLT4_2.star.cSorted.dupsMarked.bam. Extracting junction info. junction read elimination tally: $VAR1 = { 'num_hits: 7 != num_counted_on_fusion_contigs 4 ' => 4, 'num_hits: 2 != num_counted_on_fusion_contigs 1 ' => 845, 'num_hits: 8 != num_counted_on_fusion_contigs 4 ' => 36, 'num genes matched < 2' => 136, 'num_hits: 6 != num_counted_on_fusion_contigs 4 ' => 8, 'low complexity anchor region' => 18, 'num_hits: 4 != num_counted_on_fusion_contigs 2 ' => 250, 'num_hits: 5 != num_counted_on_fusion_contigs 3 ' => 3, 'small anchor length' => 94, 'per_id < 96' => 14576, 'excessive soft clipping' => 21989, 'num_hits: 3 != num_counted_on_fusion_contigs 1 ' => 50, 'num_hits: 5 != num_counted_on_fusion_contigs 2 ' => 2, 'num_hits: 4 != num_counted_on_fusion_contigs 1 ' => 4, ' ** passed ** ' => 12387, 'exons hit < 2' => 9, 'num_hits: 5 != num_counted_on_fusion_contigs 4 ' => 4, 'seq-similar region overlap' => 181, 'num_hits: 7 != num_counted_on_fusion_contigs 3 ' => 3, 'num_hits: 3 != num_counted_on_fusion_contigs 2 ' => 84, 'num_hits: 4 != num_counted_on_fusion_contigs 3 ' => 21 }; -writing fusion junction support info. -outputting the spanning read info: /tmp/nxf.60NnR2N0ks/fi_workdir/tih_rna_sample_00479_B23WHTKLT4_2.star.cSorted.dupsMarked.bam.fusion_spanning_info. - counting read alignments among fusion contigs. [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] -fusion SPANNING read extraction for scaff: AC068858.1--IL2RB [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] -fusion SPANNING read extraction for scaff: AC073529.1--MID1 [1000] [2000] -fusion SPANNING read extraction for scaff: AC079841.2--CLSTN2 [1000] [2000] [3000] [4000] [5000] [6000] -fusion SPANNING read extraction for scaff: AC092807.3--DDAH1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] -fusion SPANNING read extraction for scaff: ARHGDIA--FAAP100 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] -fusion SPANNING read extraction for scaff: ASCC2--LARGE1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] [79000] [80000] [81000] [82000] [83000] [84000] [85000] [86000] [87000] [88000] [89000] [90000] [91000] [92000] -fusion SPANNING read extraction for scaff: ATAD2--ATR [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] -fusion SPANNING read extraction for scaff: AVL9--AC011592.1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] -fusion SPANNING read extraction for scaff: AVL9--LARP7P4 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] -fusion SPANNING read extraction for scaff: BRD9--TPPP [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] -fusion SPANNING read extraction for scaff: CCDC92--AC044893.1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] -fusion SPANNING read extraction for scaff: CCN4--TG [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] -fusion SPANNING read extraction for scaff: CENPBD1P1--ZNF780B [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] -fusion SPANNING read extraction for scaff: CEP112--UTP6 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] -fusion SPANNING read extraction for scaff: COP1--TNR [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] -fusion SPANNING read extraction for scaff: COP1--LINC01657 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] -fusion SPANNING read extraction for scaff: CREBBP--CCNE1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] [79000] [80000] [81000] [82000] [83000] [84000] [85000] [86000] [87000] [88000] [89000] [90000] [91000] [92000] [93000] [94000] [95000] [96000] [97000] [98000] [99000] [100000] [101000] -fusion SPANNING read extraction for scaff: CREBBP--EPB41L3 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] -fusion SPANNING read extraction for scaff: CREBBP--C19orf12 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] -fusion SPANNING read extraction for scaff: CREBBP--AC008798.3 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] -fusion SPANNING read extraction for scaff: CRYBB2P1--MYO18B [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] -fusion SPANNING read extraction for scaff: CTC1--MYBPC1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] -fusion SPANNING read extraction for scaff: DIP2C--IL9RP2 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] [79000] [80000] [81000] [82000] [83000] [84000] [85000] [86000] [87000] [88000] -fusion SPANNING read extraction for scaff: EIF2B3--PUM1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] -fusion SPANNING read extraction for scaff: EIF3H--TMEM211 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] [79000] [80000] [81000] [82000] [83000] [84000] [85000] [86000] [87000] [88000] [89000] [90000] [91000] [92000] [93000] [94000] [95000] [96000] -fusion SPANNING read extraction for scaff: EIF4G3--AL445231.1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] -fusion SPANNING read extraction for scaff: EXT2--PLS1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] -fusion SPANNING read extraction for scaff: FAM86C1P--RNF121 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] -fusion SPANNING read extraction for scaff: GBF1--BORCS7 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] [79000] [80000] [81000] [82000] [83000] [84000] [85000] [86000] [87000] [88000] [89000] [90000] [91000] [92000] [93000] [94000] [95000] [96000] [97000] [98000] [99000] [100000] [101000] [102000] [103000] [104000] [105000] [106000] [107000] [108000] [109000] [110000] -fusion SPANNING read extraction for scaff: GK5--GOLGB1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] -fusion SPANNING read extraction for scaff: GK5--IQCB1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] -fusion SPANNING read extraction for scaff: GNAQ--GNA14 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] -fusion SPANNING read extraction for scaff: GNPTAB--RN7SL88P [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] -fusion SPANNING read extraction for scaff: GNPTAB--LINC02452 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] -fusion SPANNING read extraction for scaff: HIF1A--PRKCH [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] -fusion SPANNING read extraction for scaff: HMGB3P23--ACO1 [1000] [2000] [3000] [4000] [5000] -fusion SPANNING read extraction for scaff: IQCB1--LINC00882 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] -fusion SPANNING read extraction for scaff: KIAA2026--AC025254.1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] -fusion SPANNING read extraction for scaff: KIAA2026--AC090049.2 [1000] [2000] [3000] [4000] -fusion SPANNING read extraction for scaff: LDLRAD3--DMD-AS3 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] -fusion SPANNING read extraction for scaff: LMNB2--AC004490.1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] -fusion SPANNING read extraction for scaff: MCM5--LINC01643 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] -fusion SPANNING read extraction for scaff: MCM5--AL021877.1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] -fusion SPANNING read extraction for scaff: MGAT3--PHF21B [1000] [2000] [3000] -fusion SPANNING read extraction for scaff: MIR4713HG--GLDN [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] [79000] [80000] [81000] [82000] [83000] [84000] [85000] [86000] [87000] [88000] [89000] [90000] [91000] [92000] -fusion SPANNING read extraction for scaff: MORF4L1--VAT1L [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] -fusion SPANNING read extraction for scaff: MVB12B--CBX6 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] [79000] [80000] [81000] [82000] [83000] [84000] [85000] [86000] [87000] [88000] [89000] [90000] [91000] [92000] [93000] [94000] [95000] [96000] [97000] [98000] [99000] [100000] [101000] [102000] [103000] [104000] [105000] [106000] [107000] [108000] [109000] [110000] [111000] [112000] [113000] [114000] [115000] [116000] [117000] [118000] [119000] [120000] [121000] [122000] [123000] [124000] [125000] [126000] [127000] [128000] [129000] [130000] [131000] [132000] [133000] [134000] [135000] [136000] [137000] [138000] [139000] [140000] [141000] [142000] [143000] [144000] [145000] [146000] [147000] -fusion SPANNING read extraction for scaff: NF2--WWTR1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] -fusion SPANNING read extraction for scaff: NPHP3--ACAD11 [1000] [2000] [3000] [4000] [5000] [6000] [7000] -fusion SPANNING read extraction for scaff: NSMCE2--LINC02844 [1000] -fusion SPANNING read extraction for scaff: NXPH2--LINC01832 [1000] -fusion SPANNING read extraction for scaff: NXPH2--RPL15P5 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] -fusion SPANNING read extraction for scaff: OSBP2--LRRC8C [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] -fusion SPANNING read extraction for scaff: OTUD3--TTF2 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] -fusion SPANNING read extraction for scaff: PCDHA11--PCDHAC2 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] -fusion SPANNING read extraction for scaff: PCDHA11--PCDHA13 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] -fusion SPANNING read extraction for scaff: PCDHA11--PCDHAC1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] -fusion SPANNING read extraction for scaff: PCDHA2--PCDHAC2 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] -fusion SPANNING read extraction for scaff: PCDHA2--PCDHA13 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] -fusion SPANNING read extraction for scaff: PCDHA2--PCDHAC1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] -fusion SPANNING read extraction for scaff: PCDHA3--PCDHA13 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] -fusion SPANNING read extraction for scaff: PCDHA3--PCDHAC1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] -fusion SPANNING read extraction for scaff: PCDHA3--PCDHAC2 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA8 [1000] [2000] [3000] [4000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA10 [1000] [2000] [3000] [4000] [5000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC4 [1000] [2000] [3000] [4000] [5000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC5 [1000] [2000] [3000] [4000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB6 [1000] [2000] [3000] [4000] [5000] [6000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA12 [1000] [2000] [3000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGB7 [1000] [2000] [3000] [4000] [5000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA9 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGC3 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] [79000] [80000] [81000] [82000] -fusion SPANNING read extraction for scaff: PCDHGB2--PCDHGA11 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] -fusion SPANNING read extraction for scaff: PEPD--AC011474.1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] [79000] [80000] [81000] [82000] [83000] [84000] [85000] [86000] -fusion SPANNING read extraction for scaff: PER1--CELSR1 [1000] [2000] [3000] [4000] -fusion SPANNING read extraction for scaff: PHF21B--Z99755.2 [1000] [2000] [3000] [4000] [5000] [6000] -fusion SPANNING read extraction for scaff: PHKA1--LINC02121 [1000] [2000] [3000] [4000] [5000] [6000] -fusion SPANNING read extraction for scaff: PHKA1--RN7SKP73 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] -fusion SPANNING read extraction for scaff: PHTF2--PTPN12 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] -fusion SPANNING read extraction for scaff: PITPNM2--CSMD3 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] -fusion SPANNING read extraction for scaff: PRDM11--IL2RB [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] -fusion SPANNING read extraction for scaff: RBM19--YPEL5P3 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] -fusion SPANNING read extraction for scaff: RBM19--RN7SL88P [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] -fusion SPANNING read extraction for scaff: REL--AHSA2P [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] -fusion SPANNING read extraction for scaff: RNA5SP281--ACO1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] -fusion SPANNING read extraction for scaff: SBF2--GRK7 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] -fusion SPANNING read extraction for scaff: SGF29--NPHS1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] -fusion SPANNING read extraction for scaff: TANC2--GAS7 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] [76000] [77000] [78000] -fusion SPANNING read extraction for scaff: TIMM44--GRAMD1A [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] -fusion SPANNING read extraction for scaff: TIMM44--AC020907.4 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] -fusion SPANNING read extraction for scaff: TNIK--NAALADL2 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] -fusion SPANNING read extraction for scaff: TOMM70--DCBLD2 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] -fusion SPANNING read extraction for scaff: TP53--LINC02071 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] -fusion SPANNING read extraction for scaff: TTC28--ZNRF3 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] -fusion SPANNING read extraction for scaff: TVP23C--CDRT4 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] -fusion SPANNING read extraction for scaff: URI1--LIN37 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] [19000] [20000] [21000] [22000] [23000] [24000] [25000] [26000] [27000] [28000] [29000] [30000] [31000] [32000] [33000] [34000] [35000] [36000] [37000] [38000] [39000] [40000] [41000] [42000] [43000] [44000] [45000] [46000] [47000] [48000] [49000] [50000] [51000] [52000] [53000] [54000] [55000] [56000] [57000] [58000] [59000] [60000] [61000] [62000] [63000] [64000] [65000] [66000] [67000] [68000] [69000] [70000] [71000] [72000] [73000] [74000] [75000] -fusion SPANNING read extraction for scaff: URI1--PROSER3 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] [18000] -fusion SPANNING read extraction for scaff: ZFPM2--DPYS [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] -fusion SPANNING read extraction for scaff: ZFPM2--AP002847.1 [1000] [2000] [3000] [4000] [5000] [6000] [7000] [8000] [9000] [10000] [11000] [12000] [13000] [14000] [15000] [16000] [17000] -fusion SPANNING read extraction for scaff: ZNF536--COX7A1 -filtered reads reasons: $VAR1 = { 'seq similar region alignment' => 63293, 'lacks exon overlap' => 24020 }; EM: Starting log likelihood: -18783.949340 EM: Round [1] log likelihood: -18780.488745 EM: Round [2] log likelihood: -18780.340479 EM: Round [3] log likelihood: -18780.218666 EM: Round [4] log likelihood: -18780.111270 EM: Round [5] log likelihood: -18780.016235 EM: Round [6] log likelihood: -18779.931891 EM: Round [7] log likelihood: -18779.856845 EM: Round [8] log likelihood: -18779.789922 EM: Round [9] log likelihood: -18779.730124 EM: Round [10] log likelihood: -18779.676600 EM: Round [11] log likelihood: -18779.628617 EM: Round [12] log likelihood: -18779.585541 EM: Round [13] log likelihood: -18779.546822 EM: Round [14] log likelihood: -18779.511979 EM: Round [15] log likelihood: -18779.480592 EM: Round [16] log likelihood: -18779.452291 EM: Round [17] log likelihood: -18779.426751 EM: Round [18] log likelihood: -18779.403684 EM: Round [19] log likelihood: -18779.382835 EM: Round [20] log likelihood: -18779.363977 EM: Round [21] log likelihood: -18779.346908 EM: Round [22] log likelihood: -18779.331449 EM: Round [23] log likelihood: -18779.317439 EM: Round [24] log likelihood: -18779.304735 EM: Round [25] log likelihood: -18779.293207 EM: Round [26] log likelihood: -18779.282742 EM: Round [27] log likelihood: -18779.273235 EM: Round [28] log likelihood: -18779.264594 EM: Round [29] log likelihood: -18779.256734 EM: Round [30] log likelihood: -18779.249582 EM: Round [31] log likelihood: -18779.243068 EM: Round [32] log likelihood: -18779.237132 EM: Round [33] log likelihood: -18779.231720 EM: Round [34] log likelihood: -18779.226780 EM: Round [35] log likelihood: -18779.222269 EM: Round [36] log likelihood: -18779.218146 EM: Round [37] log likelihood: -18779.214374 EM: Round [38] log likelihood: -18779.210921 EM: Round [39] log likelihood: -18779.207756 EM: Round [40] log likelihood: -18779.204852 EM: Round [41] log likelihood: -18779.202186 EM: Round [42] log likelihood: -18779.199734 EM: Round [43] log likelihood: -18779.197477 EM: Round [44] log likelihood: -18779.195397 EM: Round [45] log likelihood: -18779.193477 EM: Round [46] log likelihood: -18779.191702 EM: Round [47] log likelihood: -18779.190060 EM: Round [48] log likelihood: -18779.188537 EM: Round [49] log likelihood: -18779.187123 EM: Round [50] log likelihood: -18779.185808 EM: Round [51] log likelihood: -18779.184582 EM: Round [52] log likelihood: -18779.183438 EM: Round [53] log likelihood: -18779.182367 EM: Round [54] log likelihood: -18779.181364 EM: Round [55] log likelihood: -18779.180422 EM: Round [56] log likelihood: -18779.179536 EM: Round [57] log likelihood: -18779.178700 EM: Round [58] log likelihood: -18779.177910 EM: Round [59] log likelihood: -18779.177161 EM: Round [60] log likelihood: -18779.176451 EM: Round [61] log likelihood: -18779.175776 EM: Round [62] log likelihood: -18779.175132 EM: Round [63] log likelihood: -18779.174517 EM: Round [64] log likelihood: -18779.173928 EM: Round [65] log likelihood: -18779.173364 EM: Round [66] log likelihood: -18779.172821 EM: Round [67] log likelihood: -18779.172298 EM: Round [68] log likelihood: -18779.171793 EM: Round [69] log likelihood: -18779.171305 EM: Round [70] log likelihood: -18779.170832 EM: Round [71] log likelihood: -18779.170374 EM: Round [72] log likelihood: -18779.169928 EM: Round [73] log likelihood: -18779.169494 EM: Round [74] log likelihood: -18779.169070 EM: Round [75] log likelihood: -18779.168657 EM: Round [76] log likelihood: -18779.168253 EM: Round [77] log likelihood: -18779.167857 EM: Round [78] log likelihood: -18779.167469 EM: Round [79] log likelihood: -18779.167089 EM: Round [80] log likelihood: -18779.166715 EM: Round [81] log likelihood: -18779.166347 EM: Round [82] log likelihood: -18779.165985 EM: Round [83] log likelihood: -18779.165628 EM: Round [84] log likelihood: -18779.165276 EM: Round [85] log likelihood: -18779.164929 EM: Round [86] log likelihood: -18779.164587 EM: Round [87] log likelihood: -18779.164248 EM: Round [88] log likelihood: -18779.163913 EM: Round [89] log likelihood: -18779.163582 EM: Round [90] log likelihood: -18779.163254 EM: Round [91] log likelihood: -18779.162929 EM: Round [92] log likelihood: -18779.162607 EM: Round [93] log likelihood: -18779.162289 EM: Round [94] log likelihood: -18779.161972 EM: Round [95] log likelihood: -18779.161659 EM: Round [96] log likelihood: -18779.161348 EM: Round [97] log likelihood: -18779.161039 EM: Round [98] log likelihood: -18779.160733 EM: Round [99] log likelihood: -18779.160429 EM: Round [100] log likelihood: -18779.160127 EM: Round [101] log likelihood: -18779.159827 EM: Round [102] log likelihood: -18779.159528 EM: Round [103] log likelihood: -18779.159232 EM: Round [104] log likelihood: -18779.158938 EM: Round [105] log likelihood: -18779.158645 EM: Round [106] log likelihood: -18779.158355 EM: Round [107] log likelihood: -18779.158065 EM: Round [108] log likelihood: -18779.157778 EM: Round [109] log likelihood: -18779.157492 EM: Round [110] log likelihood: -18779.157208 EM: Round [111] log likelihood: -18779.156925 EM: Round [112] log likelihood: -18779.156644 EM: Round [113] log likelihood: -18779.156364 EM: Round [114] log likelihood: -18779.156086 EM: Round [115] log likelihood: -18779.155809 EM: Round [116] log likelihood: -18779.155534 EM: Round [117] log likelihood: -18779.155260 EM: Round [118] log likelihood: -18779.154987 EM: Round [119] log likelihood: -18779.154716 EM: Round [120] log likelihood: -18779.154446 EM: Round [121] log likelihood: -18779.154177 EM: Round [122] log likelihood: -18779.153910 EM: Round [123] log likelihood: -18779.153644 EM: Round [124] log likelihood: -18779.153380 EM: Round [125] log likelihood: -18779.153116 EM: Round [126] log likelihood: -18779.152854 EM: Round [127] log likelihood: -18779.152593 EM: Round [128] log likelihood: -18779.152334 EM: Round [129] log likelihood: -18779.152075 EM: Round [130] log likelihood: -18779.151818 EM: Round [131] log likelihood: -18779.151562 EM: Round [132] log likelihood: -18779.151308 EM: Round [133] log likelihood: -18779.151054 EM: Round [134] log likelihood: -18779.150802 EM: Round [135] log likelihood: -18779.150551 EM: Round [136] log likelihood: -18779.150301 EM: Round [137] log likelihood: -18779.150052 EM: Round [138] log likelihood: -18779.149804 EM: Round [139] log likelihood: -18779.149558 EM: Round [140] log likelihood: -18779.149312 EM: Round [141] log likelihood: -18779.149068 EM: Round [142] log likelihood: -18779.148825 EM: Round [143] log likelihood: -18779.148583 EM: Round [144] log likelihood: -18779.148342 EM: Round [145] log likelihood: -18779.148102 EM: Round [146] log likelihood: -18779.147864 EM: Round [147] log likelihood: -18779.147626 EM: Round [148] log likelihood: -18779.147390 EM: Round [149] log likelihood: -18779.147154 EM: Round [150] log likelihood: -18779.146920 EM: Round [151] log likelihood: -18779.146687 EM: Round [152] log likelihood: -18779.146455 EM: Round [153] log likelihood: -18779.146224 EM: Round [154] log likelihood: -18779.145994 EM: Round [155] log likelihood: -18779.145765 EM: Round [156] log likelihood: -18779.145537 EM: Round [157] log likelihood: -18779.145310 EM: Round [158] log likelihood: -18779.145084 EM: Round [159] log likelihood: -18779.144859 EM: Round [160] log likelihood: -18779.144636 EM: Round [161] log likelihood: -18779.144413 EM: Round [162] log likelihood: -18779.144191 EM: Round [163] log likelihood: -18779.143970 EM: Round [164] log likelihood: -18779.143751 EM: Round [165] log likelihood: -18779.143532 EM: Round [166] log likelihood: -18779.143314 EM: Round [167] log likelihood: -18779.143098 EM: Round [168] log likelihood: -18779.142882 EM: Round [169] log likelihood: -18779.142667 EM: Round [170] log likelihood: -18779.142453 EM: Round [171] log likelihood: -18779.142241 EM: Round [172] log likelihood: -18779.142029 EM: Round [173] log likelihood: -18779.141818 EM: Round [174] log likelihood: -18779.141608 EM: Round [175] log likelihood: -18779.141399 EM: Round [176] log likelihood: -18779.141191 EM: Round [177] log likelihood: -18779.140984 EM: Round [178] log likelihood: -18779.140778 EM: Round [179] log likelihood: -18779.140573 EM: Round [180] log likelihood: -18779.140369 EM: Round [181] log likelihood: -18779.140165 EM: Round [182] log likelihood: -18779.139963 EM: Round [183] log likelihood: -18779.139762 EM: Round [184] log likelihood: -18779.139561 EM: Round [185] log likelihood: -18779.139361 EM: Round [186] log likelihood: -18779.139163 EM: Round [187] log likelihood: -18779.138965 EM: Round [188] log likelihood: -18779.138768 EM: Round [189] log likelihood: -18779.138572 EM: Round [190] log likelihood: -18779.138377 EM: Round [191] log likelihood: -18779.138182 EM: Round [192] log likelihood: -18779.137989 EM: Round [193] log likelihood: -18779.137797 EM: Round [194] log likelihood: -18779.137605 EM: Round [195] log likelihood: -18779.137414 EM: Round [196] log likelihood: -18779.137224 EM: Round [197] log likelihood: -18779.137035 EM: Round [198] log likelihood: -18779.136847 EM: Round [199] log likelihood: -18779.136660 EM: Round [200] log likelihood: -18779.136473 EM: Round [201] log likelihood: -18779.136288 EM: Round [202] log likelihood: -18779.136103 EM: Round [203] log likelihood: -18779.135919 EM: Round [204] log likelihood: -18779.135736 EM: Round [205] log likelihood: -18779.135553 EM: Round [206] log likelihood: -18779.135372 EM: Round [207] log likelihood: -18779.135191 EM: Round [208] log likelihood: -18779.135012 EM: Round [209] log likelihood: -18779.134832 EM: Round [210] log likelihood: -18779.134654 EM: Round [211] log likelihood: -18779.134477 EM: Round [212] log likelihood: -18779.134300 EM: Round [213] log likelihood: -18779.134124 EM: Round [214] log likelihood: -18779.133949 EM: Round [215] log likelihood: -18779.133775 EM: Round [216] log likelihood: -18779.133602 EM: Round [217] log likelihood: -18779.133429 EM: Round [218] log likelihood: -18779.133257 EM: Round [219] log likelihood: -18779.133086 EM: Round [220] log likelihood: -18779.132916 EM: Round [221] log likelihood: -18779.132746 EM: Round [222] log likelihood: -18779.132577 EM: Round [223] log likelihood: -18779.132409 EM: Round [224] log likelihood: -18779.132242 EM: Round [225] log likelihood: -18779.132076 EM: Round [226] log likelihood: -18779.131910 EM: Round [227] log likelihood: -18779.131745 EM: Round [228] log likelihood: -18779.131581 EM: Round [229] log likelihood: -18779.131417 EM: Round [230] log likelihood: -18779.131254 EM: Round [231] log likelihood: -18779.131092 EM: Round [232] log likelihood: -18779.130931 EM: Round [233] log likelihood: -18779.130770 EM: Round [234] log likelihood: -18779.130610 EM: Round [235] log likelihood: -18779.130451 EM: Round [236] log likelihood: -18779.130293 EM: Round [237] log likelihood: -18779.130135 EM: Round [238] log likelihood: -18779.129978 EM: Round [239] log likelihood: -18779.129822 EM: Round [240] log likelihood: -18779.129666 EM: Round [241] log likelihood: -18779.129511 EM: Round [242] log likelihood: -18779.129357 EM: Round [243] log likelihood: -18779.129203 EM: Round [244] log likelihood: -18779.129050 EM: Round [245] log likelihood: -18779.128898 EM: Round [246] log likelihood: -18779.128747 EM: Round [247] log likelihood: -18779.128596 EM: Round [248] log likelihood: -18779.128446 EM: Round [249] log likelihood: -18779.128296 EM: Round [250] log likelihood: -18779.128148 EM: Round [251] log likelihood: -18779.127999 EM: Round [252] log likelihood: -18779.127852 EM: Round [253] log likelihood: -18779.127705 EM: Round [254] log likelihood: -18779.127559 EM: Round [255] log likelihood: -18779.127414 EM: Round [256] log likelihood: -18779.127269 EM: Round [257] log likelihood: -18779.127125 EM: Round [258] log likelihood: -18779.126981 EM: Round [259] log likelihood: -18779.126838 EM: Round [260] log likelihood: -18779.126696 EM: Round [261] log likelihood: -18779.126555 EM: Round [262] log likelihood: -18779.126414 EM: Round [263] log likelihood: -18779.126273 EM: Round [264] log likelihood: -18779.126134 EM: Round [265] log likelihood: -18779.125994 EM: Round [266] log likelihood: -18779.125856 EM: Round [267] log likelihood: -18779.125718 EM: Round [268] log likelihood: -18779.125581 EM: Round [269] log likelihood: -18779.125444 EM: Round [270] log likelihood: -18779.125308 EM: Round [271] log likelihood: -18779.125173 EM: Round [272] log likelihood: -18779.125038 EM: Round [273] log likelihood: -18779.124904 EM: Round [274] log likelihood: -18779.124771 EM: Round [275] log likelihood: -18779.124638 EM: Round [276] log likelihood: -18779.124505 EM: Round [277] log likelihood: -18779.124373 EM: Round [278] log likelihood: -18779.124242 EM: Round [279] log likelihood: -18779.124112 EM: Round [280] log likelihood: -18779.123982 EM: Round [281] log likelihood: -18779.123852 EM: Round [282] log likelihood: -18779.123723 EM: Round [283] log likelihood: -18779.123595 EM: Round [284] log likelihood: -18779.123467 EM: Round [285] log likelihood: -18779.123340 EM: Round [286] log likelihood: -18779.123214 EM: Round [287] log likelihood: -18779.123088 EM: Round [288] log likelihood: -18779.122962 EM: Round [289] log likelihood: -18779.122837 EM: Round [290] log likelihood: -18779.122713 EM: Round [291] log likelihood: -18779.122589 EM: Round [292] log likelihood: -18779.122466 EM: Round [293] log likelihood: -18779.122343 EM: Round [294] log likelihood: -18779.122221 EM: Round [295] log likelihood: -18779.122100 EM: Round [296] log likelihood: -18779.121979 EM: Round [297] log likelihood: -18779.121858 EM: Round [298] log likelihood: -18779.121738 EM: Round [299] log likelihood: -18779.121619 EM: Round [300] log likelihood: -18779.121500 EM: Round [301] log likelihood: -18779.121382 EM: Round [302] log likelihood: -18779.121264 EM: Round [303] log likelihood: -18779.121146 EM: Round [304] log likelihood: -18779.121030 EM: Round [305] log likelihood: -18779.120913 EM: Round [306] log likelihood: -18779.120798 EM: Round [307] log likelihood: -18779.120682 EM: Round [308] log likelihood: -18779.120568 EM: Round [309] log likelihood: -18779.120454 EM: Round [310] log likelihood: -18779.120340 EM: Round [311] log likelihood: -18779.120227 EM: Round [312] log likelihood: -18779.120114 EM: Round [313] log likelihood: -18779.120002 EM: Round [314] log likelihood: -18779.119890 EM: Round [315] log likelihood: -18779.119779 EM: Round [316] log likelihood: -18779.119668 EM: Round [317] log likelihood: -18779.119558 EM: Round [318] log likelihood: -18779.119448 EM: Round [319] log likelihood: -18779.119339 EM: Round [320] log likelihood: -18779.119231 EM: Round [321] log likelihood: -18779.119122 EM: Round [322] log likelihood: -18779.119015 EM: Round [323] log likelihood: -18779.118907 EM: Round [324] log likelihood: -18779.118800 EM: Round [325] log likelihood: -18779.118694 EM: Round [326] log likelihood: -18779.118588 EM: Round [327] log likelihood: -18779.118483 EM: Round [328] log likelihood: -18779.118378 EM: Round [329] log likelihood: -18779.118274 EM: Round [330] log likelihood: -18779.118170 EM: Round [331] log likelihood: -18779.118066 EM: Round [332] log likelihood: -18779.117963 EM: Round [333] log likelihood: -18779.117860 EM: Round [334] log likelihood: -18779.117758 EM: Round [335] log likelihood: -18779.117657 EM: Round [336] log likelihood: -18779.117555 EM: Round [337] log likelihood: -18779.117455 EM: Round [338] log likelihood: -18779.117354 EM: Round [339] log likelihood: -18779.117254 EM: Stopping iterations at round 339 due to insufficient improvement in likelihood. [bam_sort_core] merging from 0 files and 8 in-memory blocks... -extracting read coordinates from /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.consolidated.bam into /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.consolidated.bam.read_coords CMD: touch /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.consolidated.bam.read_coords.ok CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k2,2 -k4,4n /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.consolidated.bam.read_coords > /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.consolidated.bam.read_coords.sort_by_readname CMD: /usr/bin/sort --parallel=1 -S10G -T . -k1,1 -k3,3n /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.consolidated.bam.frag_coords > /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.consolidated.bam.frag_coords.coord_sorted CMD: /usr/local/src/STAR-Fusion/FusionInspector/FusionFilter/util/blast_filter.pl --fusion_preds /tmp/nxf.60NnR2N0ks/fi_workdir/tih_rna_sample_00479_B23WHTKLT4_2.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.60NnR2N0ks/fi_workdir/tih_rna_sample_00479_B23WHTKLT4_2.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.60NnR2N0ks/fi_workdir/tih_rna_sample_00479_B23WHTKLT4_2.fusion_preds.coalesced.summary.EMadj.min_frag_thresh.wSpliceInfo.post_blast_filter.post_promisc_filter /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.post_blast_and_promiscuity_filter -done, see /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.post_blast_and_promiscuity_filter.annot_filter.pass EM: Starting log likelihood: -17603.200399 EM: Round [1] log likelihood: -17601.321117 EM: Round [2] log likelihood: -17601.316780 EM: Round [3] log likelihood: -17601.316767 EM: Stopping iterations at round 3 due to insufficient improvement in likelihood. -total frags in /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2_1.fastp.fastq.gz: 187980796 Warning - not locating file: /tmp/nxf.60NnR2N0ks/tih_rna_sample_00479_B23WHTKLT4_2.gmap_trinity_GG.fusions.gff3.bed WARNING, no entry stored in dbm for [ENSG00000249383.2] WARNING, no entry stored in dbm for [ENSG00000249383.2] WARNING, no entry stored in dbm for [ENSG00000249383.2] WARNING, no entry stored in dbm for [ENSG00000249383.2] WARNING, no entry stored in dbm for [ENSG00000249383.2] WARNING, no entry stored in dbm for [ENSG00000264515.6] WARNING, no entry stored in dbm for [ENSG00000264515.6] WARNING, no entry stored in dbm for [ENSG00000273068.1] WARNING, no entry stored in dbm for [ENSG00000273068.1] WARNING, no entry stored in dbm for [ENSG00000282057.1] WARNING, no entry stored in dbm for [ENSG00000282057.1] WARNING, no entry stored in dbm for [ENSG00000282057.1] WARNING, no entry stored in dbm for [ENSG00000282057.1] WARNING, no entry stored in dbm for [ENSG00000282057.1] WARNING, no entry stored in dbm for [ENSG00000282057.1] WARNING, no entry stored in dbm for [ENSG00000236137.1] WARNING, no entry stored in dbm for [ENSG00000236137.1] WARNING, no entry stored in dbm for [ENSG00000236137.1] WARNING, no entry stored in dbm for [ENSG00000232420.2] WARNING, no entry stored in dbm for [ENSG00000232420.2] WARNING, no entry stored in dbm for [ENSG00000232420.2] WARNING, no entry stored in dbm for [ENSG00000236828.1] WARNING, no entry stored in dbm for [ENSG00000267122.1] WARNING, no entry stored in dbm for [ENSG00000267122.1] WARNING, no entry stored in dbm for [ENSG00000267122.1] WARNING, no entry stored in dbm for [ENSG00000100058.12] WARNING, no entry stored in dbm for [ENSG00000100058.12] WARNING, no entry stored in dbm for [ENSG00000100058.12] 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 [ENSG00000213753.11] WARNING, no entry stored in dbm for [ENSG00000213753.11] WARNING, no entry stored in dbm for [ENSG00000213753.11] WARNING, no entry stored in dbm for [ENSG00000173209.23] WARNING, no entry stored in dbm for [ENSG00000253679.1] WARNING, no entry stored in dbm for [ENSG00000242759.8] WARNING, no entry stored in dbm for [ENSG00000242759.8] WARNING, no entry stored in dbm for [ENSG00000234129.8] WARNING, no entry stored in dbm for [ENSG00000234129.8] WARNING, no entry stored in dbm for [ENSG00000234129.8] WARNING, no entry stored in dbm for [ENSG00000234129.8] WARNING, no entry stored in dbm for [ENSG00000234129.8] WARNING, no entry stored in dbm for [ENSG00000287022.1] WARNING, no entry stored in dbm for [ENSG00000259240.1] WARNING, no entry stored in dbm for [ENSG00000259240.1] WARNING, no entry stored in dbm for [ENSG00000259240.1] WARNING, no entry stored in dbm for [ENSG00000259240.1] ls: cannot access 'IGV_inputs': No such file or directory