STAR version=STAR_2.5.3a STAR compilation time,server,dir=Fri Mar 17 11:35:46 EDT 2017 florence.cshl.edu:/sonas-hs/gingeras/nlsas_norepl/user/dobin/STAR/STAR.sandbox/source ##### DEFAULT parameters: versionSTAR 20201 versionGenome 20101 20200 parametersFiles - sysShell - runMode alignReads runThreadN 1 runDirPerm User_RWX runRNGseed 777 genomeDir ./GenomeDir/ genomeLoad NoSharedMemory genomeFastaFiles - genomeChainFiles - genomeSAindexNbases 14 genomeChrBinNbits 18 genomeSAsparseD 1 genomeSuffixLengthMax 18446744073709551615 genomeFileSizes 0 readFilesIn Read1 Read2 readFilesCommand - readMatesLengthsIn NotEqual readMapNumber 18446744073709551615 readNameSeparator / inputBAMfile - bamRemoveDuplicatesType - bamRemoveDuplicatesMate2basesN 0 limitGenomeGenerateRAM 31000000000 limitIObufferSize 150000000 limitOutSAMoneReadBytes 100000 limitOutSJcollapsed 1000000 limitOutSJoneRead 1000 limitBAMsortRAM 0 limitSjdbInsertNsj 1000000 outTmpDir - outTmpKeep None outStd Log outReadsUnmapped None outQSconversionAdd 0 outMultimapperOrder Old_2.4 outSAMtype SAM outSAMmode Full outSAMstrandField None outSAMattributes Standard outSAMunmapped None outSAMorder Paired outSAMprimaryFlag OneBestScore outSAMreadID Standard outSAMmapqUnique 255 outSAMflagOR 0 outSAMflagAND 65535 outSAMattrRGline - outSAMheaderHD - outSAMheaderPG - outSAMheaderCommentFile - outBAMcompression 1 outBAMsortingThreadN 0 outSAMfilter None outSAMmultNmax 18446744073709551615 outSAMattrIHstart 1 outSJfilterReads All outSJfilterCountUniqueMin 3 1 1 1 outSJfilterCountTotalMin 3 1 1 1 outSJfilterOverhangMin 30 12 12 12 outSJfilterDistToOtherSJmin 10 0 5 10 outSJfilterIntronMaxVsReadN 50000 100000 200000 outWigType None outWigStrand Stranded outWigReferencesPrefix - outWigNorm RPM outFilterType Normal outFilterMultimapNmax 10 outFilterMultimapScoreRange 1 outFilterScoreMin 0 outFilterScoreMinOverLread 0.66 outFilterMatchNmin 0 outFilterMatchNminOverLread 0.66 outFilterMismatchNmax 10 outFilterMismatchNoverLmax 0.3 outFilterMismatchNoverReadLmax 1 outFilterIntronMotifs None clip5pNbases 0 clip3pNbases 0 clip3pAfterAdapterNbases 0 clip3pAdapterSeq - clip3pAdapterMMp 0.1 winBinNbits 16 winAnchorDistNbins 9 winFlankNbins 4 winAnchorMultimapNmax 50 winReadCoverageRelativeMin 0.5 winReadCoverageBasesMin 0 scoreGap 0 scoreGapNoncan -8 scoreGapGCAG -4 scoreGapATAC -8 scoreStitchSJshift 1 scoreGenomicLengthLog2scale -0.25 scoreDelBase -2 scoreDelOpen -2 scoreInsOpen -2 scoreInsBase -2 seedSearchLmax 0 seedSearchStartLmax 50 seedSearchStartLmaxOverLread 1 seedPerReadNmax 1000 seedPerWindowNmax 50 seedNoneLociPerWindow 10 seedMultimapNmax 10000 alignIntronMin 21 alignIntronMax 0 alignMatesGapMax 0 alignTranscriptsPerReadNmax 10000 alignSJoverhangMin 5 alignSJDBoverhangMin 3 alignSJstitchMismatchNmax 0 -1 0 0 alignSplicedMateMapLmin 0 alignSplicedMateMapLminOverLmate 0.66 alignWindowsPerReadNmax 10000 alignTranscriptsPerWindowNmax 100 alignEndsType Local alignSoftClipAtReferenceEnds Yes alignEndsProtrude 0 ConcordantPair chimSegmentMin 0 chimScoreMin 0 chimScoreDropMax 20 chimScoreSeparation 10 chimScoreJunctionNonGTAG -1 chimMainSegmentMultNmax 10 chimJunctionOverhangMin 20 chimOutType SeparateSAMold chimFilter banGenomicN chimSegmentReadGapMax 0 sjdbFileChrStartEnd - sjdbGTFfile - sjdbGTFchrPrefix - sjdbGTFfeatureExon exon sjdbGTFtagExonParentTranscript transcript_id sjdbGTFtagExonParentGene gene_id sjdbOverhang 100 sjdbScore 2 sjdbInsertSave Basic quantMode - quantTranscriptomeBAMcompression 1 quantTranscriptomeBan IndelSoftclipSingleend twopass1readsN 18446744073709551615 twopassMode None ##### Command Line: /oak/stanford/groups/akundaje/marinovg/programs/STAR-2.5.3a/bin/Linux_x86_64_static/STAR --limitSjdbInsertNsj 10000000 --genomeDir /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90-STAR --outFileNamePrefix Dmel2_22-STAR-2.5.3a/STAR-2.5.3a- --readFilesIn Dmel2_22.end1.fastq.gz --sjdbGTFfile /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf --runThreadN 20 --outSAMunmapped Within --outFilterType BySJout --outSAMattributes NH HI AS NM MD --outFilterMultimapNmax 50 --outSAMstrandField intronMotif --outFilterMismatchNmax 999 --outFilterMismatchNoverReadLmax 0.04 --alignIntronMin 10 --alignIntronMax 1000000 --alignMatesGapMax 1000000 --alignSJoverhangMin 8 --alignSJDBoverhangMin 1 --sjdbScore 1 --readFilesCommand zcat --outSAMtype BAM SortedByCoordinate --outWigStrand Stranded --twopassMode Basic --twopass1readsN -1 --limitBAMsortRAM 500000000000 ##### Initial USER parameters from Command Line: outFileNamePrefix Dmel2_22-STAR-2.5.3a/STAR-2.5.3a- ###### All USER parameters from Command Line: limitSjdbInsertNsj 10000000 ~RE-DEFINED genomeDir /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90-STAR ~RE-DEFINED outFileNamePrefix Dmel2_22-STAR-2.5.3a/STAR-2.5.3a- ~RE-DEFINED readFilesIn Dmel2_22.end1.fastq.gz ~RE-DEFINED sjdbGTFfile /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf ~RE-DEFINED runThreadN 20 ~RE-DEFINED outSAMunmapped Within ~RE-DEFINED outFilterType BySJout ~RE-DEFINED outSAMattributes NH HI AS NM MD ~RE-DEFINED outFilterMultimapNmax 50 ~RE-DEFINED outSAMstrandField intronMotif ~RE-DEFINED outFilterMismatchNmax 999 ~RE-DEFINED outFilterMismatchNoverReadLmax0.04 ~RE-DEFINED alignIntronMin 10 ~RE-DEFINED alignIntronMax 1000000 ~RE-DEFINED alignMatesGapMax 1000000 ~RE-DEFINED alignSJoverhangMin 8 ~RE-DEFINED alignSJDBoverhangMin 1 ~RE-DEFINED sjdbScore 1 ~RE-DEFINED readFilesCommand zcat ~RE-DEFINED outSAMtype BAM SortedByCoordinate ~RE-DEFINED outWigStrand Stranded ~RE-DEFINED twopassMode Basic ~RE-DEFINED twopass1readsN 18446744073709551615 ~RE-DEFINED limitBAMsortRAM 500000000000 ~RE-DEFINED ##### Finished reading parameters from all sources ##### Final user re-defined parameters-----------------: runThreadN 20 genomeDir /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90-STAR readFilesIn Dmel2_22.end1.fastq.gz readFilesCommand zcat limitBAMsortRAM 500000000000 limitSjdbInsertNsj 10000000 outFileNamePrefix Dmel2_22-STAR-2.5.3a/STAR-2.5.3a- outSAMtype BAM SortedByCoordinate outSAMstrandField intronMotif outSAMattributes NH HI AS NM MD outSAMunmapped Within outWigStrand Stranded outFilterType BySJout outFilterMultimapNmax 50 outFilterMismatchNmax 999 outFilterMismatchNoverReadLmax 0.04 alignIntronMin 10 alignIntronMax 1000000 alignMatesGapMax 1000000 alignSJoverhangMin 8 alignSJDBoverhangMin 1 sjdbGTFfile /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf sjdbScore 1 twopass1readsN 18446744073709551615 twopassMode Basic ------------------------------- ##### Final effective command line: /oak/stanford/groups/akundaje/marinovg/programs/STAR-2.5.3a/bin/Linux_x86_64_static/STAR --runThreadN 20 --genomeDir /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90-STAR --readFilesIn Dmel2_22.end1.fastq.gz --readFilesCommand zcat --limitBAMsortRAM 500000000000 --limitSjdbInsertNsj 10000000 --outFileNamePrefix Dmel2_22-STAR-2.5.3a/STAR-2.5.3a- --outSAMtype BAM SortedByCoordinate --outSAMstrandField intronMotif --outSAMattributes NH HI AS NM MD --outSAMunmapped Within --outWigStrand Stranded --outFilterType BySJout --outFilterMultimapNmax 50 --outFilterMismatchNmax 999 --outFilterMismatchNoverReadLmax 0.04 --alignIntronMin 10 --alignIntronMax 1000000 --alignMatesGapMax 1000000 --alignSJoverhangMin 8 --alignSJDBoverhangMin 1 --sjdbGTFfile /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf --sjdbScore 1 --twopass1readsN 18446744073709551615 --twopassMode Basic ##### Final parameters after user input--------------------------------: versionSTAR 20201 versionGenome 20101 20200 parametersFiles - sysShell - runMode alignReads runThreadN 20 runDirPerm User_RWX runRNGseed 777 genomeDir /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90-STAR genomeLoad NoSharedMemory genomeFastaFiles - genomeChainFiles - genomeSAindexNbases 14 genomeChrBinNbits 18 genomeSAsparseD 1 genomeSuffixLengthMax 18446744073709551615 genomeFileSizes 0 readFilesIn Dmel2_22.end1.fastq.gz readFilesCommand zcat readMatesLengthsIn NotEqual readMapNumber 18446744073709551615 readNameSeparator / inputBAMfile - bamRemoveDuplicatesType - bamRemoveDuplicatesMate2basesN 0 limitGenomeGenerateRAM 31000000000 limitIObufferSize 150000000 limitOutSAMoneReadBytes 100000 limitOutSJcollapsed 1000000 limitOutSJoneRead 1000 limitBAMsortRAM 500000000000 limitSjdbInsertNsj 10000000 outFileNamePrefix Dmel2_22-STAR-2.5.3a/STAR-2.5.3a- outTmpDir - outTmpKeep None outStd Log outReadsUnmapped None outQSconversionAdd 0 outMultimapperOrder Old_2.4 outSAMtype BAM SortedByCoordinate outSAMmode Full outSAMstrandField intronMotif outSAMattributes NH HI AS NM MD outSAMunmapped Within outSAMorder Paired outSAMprimaryFlag OneBestScore outSAMreadID Standard outSAMmapqUnique 255 outSAMflagOR 0 outSAMflagAND 65535 outSAMattrRGline - outSAMheaderHD - outSAMheaderPG - outSAMheaderCommentFile - outBAMcompression 1 outBAMsortingThreadN 0 outSAMfilter None outSAMmultNmax 18446744073709551615 outSAMattrIHstart 1 outSJfilterReads All outSJfilterCountUniqueMin 3 1 1 1 outSJfilterCountTotalMin 3 1 1 1 outSJfilterOverhangMin 30 12 12 12 outSJfilterDistToOtherSJmin 10 0 5 10 outSJfilterIntronMaxVsReadN 50000 100000 200000 outWigType None outWigStrand Stranded outWigReferencesPrefix - outWigNorm RPM outFilterType BySJout outFilterMultimapNmax 50 outFilterMultimapScoreRange 1 outFilterScoreMin 0 outFilterScoreMinOverLread 0.66 outFilterMatchNmin 0 outFilterMatchNminOverLread 0.66 outFilterMismatchNmax 999 outFilterMismatchNoverLmax 0.3 outFilterMismatchNoverReadLmax 0.04 outFilterIntronMotifs None clip5pNbases 0 clip3pNbases 0 clip3pAfterAdapterNbases 0 clip3pAdapterSeq - clip3pAdapterMMp 0.1 winBinNbits 16 winAnchorDistNbins 9 winFlankNbins 4 winAnchorMultimapNmax 50 winReadCoverageRelativeMin 0.5 winReadCoverageBasesMin 0 scoreGap 0 scoreGapNoncan -8 scoreGapGCAG -4 scoreGapATAC -8 scoreStitchSJshift 1 scoreGenomicLengthLog2scale -0.25 scoreDelBase -2 scoreDelOpen -2 scoreInsOpen -2 scoreInsBase -2 seedSearchLmax 0 seedSearchStartLmax 50 seedSearchStartLmaxOverLread 1 seedPerReadNmax 1000 seedPerWindowNmax 50 seedNoneLociPerWindow 10 seedMultimapNmax 10000 alignIntronMin 10 alignIntronMax 1000000 alignMatesGapMax 1000000 alignTranscriptsPerReadNmax 10000 alignSJoverhangMin 8 alignSJDBoverhangMin 1 alignSJstitchMismatchNmax 0 -1 0 0 alignSplicedMateMapLmin 0 alignSplicedMateMapLminOverLmate 0.66 alignWindowsPerReadNmax 10000 alignTranscriptsPerWindowNmax 100 alignEndsType Local alignSoftClipAtReferenceEnds Yes alignEndsProtrude 0 ConcordantPair chimSegmentMin 0 chimScoreMin 0 chimScoreDropMax 20 chimScoreSeparation 10 chimScoreJunctionNonGTAG -1 chimMainSegmentMultNmax 10 chimJunctionOverhangMin 20 chimOutType SeparateSAMold chimFilter banGenomicN chimSegmentReadGapMax 0 sjdbFileChrStartEnd - sjdbGTFfile /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf sjdbGTFchrPrefix - sjdbGTFfeatureExon exon sjdbGTFtagExonParentTranscript transcript_id sjdbGTFtagExonParentGene gene_id sjdbOverhang 100 sjdbScore 1 sjdbInsertSave Basic quantMode - quantTranscriptomeBAMcompression 1 quantTranscriptomeBan IndelSoftclipSingleend twopass1readsN 18446744073709551615 twopassMode Basic ---------------------------------------- Input read files for mate 1, from input string Dmel2_22.end1.fastq.gz -rw-rw----+ 1 marinovg oak_akundaje 106320026 Dec 21 2017 Dmel2_22.end1.fastq.gz readsCommandsFile: exec > "Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp/tmp.fifo.read1" echo FILE 0 zcat "Dmel2_22.end1.fastq.gz" WARNING --outSAMstrandField=intronMotif, therefore STAR will output XS attribute Finished loading and checking parameters Reading genome generation parameters: versionGenome 20201 ~RE-DEFINED genomeFastaFiles /oak/stanford/groups/akundaje/marinovg/genomes/dm6/bowtie-indexes/dm6.fa ~RE-DEFINED genomeSAindexNbases 14 ~RE-DEFINED genomeChrBinNbits 18 ~RE-DEFINED genomeSAsparseD 1 ~RE-DEFINED sjdbOverhang 99 ~RE-DEFINED sjdbFileChrStartEnd - ~RE-DEFINED sjdbGTFfile /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf ~RE-DEFINED sjdbGTFchrPrefix - ~RE-DEFINED sjdbGTFfeatureExon exon ~RE-DEFINED sjdbGTFtagExonParentTranscripttranscript_id ~RE-DEFINED sjdbGTFtagExonParentGene gene_id ~RE-DEFINED sjdbInsertSave Basic ~RE-DEFINED genomeFileSizes 638756154 1274482468 ~RE-DEFINED Genome version is compatible with current STAR version Number of real (reference) chromosomes= 1870 1 chr2L 23513712 0 2 chr2R 25286936 23592960 3 chr3L 28110227 49020928 4 chr3R 32079331 77332480 5 chr4 1348131 109576192 6 chrM 19524 111149056 7 chrUn_DS485919v1 1021 111411200 8 chrUn_DS483755v1 6936 111673344 9 chrUn_DS485425v1 1143 111935488 10 chrUn_DS484861v1 1395 112197632 11 chrUn_DS484484v1 2020 112459776 12 chrUn_DS483705v1 27456 112721920 13 chrUn_DS485490v1 1127 112984064 14 chrUn_DS485998v1 1003 113246208 15 chrUn_DS483873v1 4222 113508352 16 chrUn_DS485608v1 1097 113770496 17 chrUn_DS485270v1 1185 114032640 18 chrUn_DS485979v1 1008 114294784 19 chrUn_DS485398v1 1148 114556928 20 chrUn_DS484139v1 2820 114819072 21 chrUn_DS483906v1 3924 115081216 22 chrUn_DS485760v1 1058 115343360 23 chrUn_DS484191v1 2665 115605504 24 chrUn_DS485340v1 1163 115867648 25 chrUn_DS484489v1 2008 116129792 26 chrUn_DS485495v1 1126 116391936 27 chrUn_DS484923v1 1343 116654080 28 chrUn_DS484663v1 1714 116916224 29 chrUn_DS485390v1 1152 117178368 30 chrUn_DS485130v1 1232 117440512 31 chrUn_DS485995v1 1004 117702656 32 chrUn_DS484448v1 2088 117964800 33 chrUn_DS484827v1 1432 118226944 34 chrUn_DS485467v1 1132 118489088 35 chrUn_DS485433v1 1140 118751232 36 chrUn_DS484944v1 1330 119013376 37 chrUn_DS485504v1 1123 119275520 38 chrUn_DS484938v1 1334 119537664 39 chrUn_DS485984v1 1006 119799808 40 chrUn_DS484921v1 1346 120061952 41 chrUn_DS485859v1 1036 120324096 42 chrUn_DS485086v1 1250 120586240 43 chrUn_DS484058v1 3073 120848384 44 chrUn_DS485294v1 1178 121110528 45 chrUn_DS484855v1 1404 121372672 46 chrUn_DS485356v1 1160 121634816 47 chrUn_DS485246v1 1193 121896960 48 chrUn_DS485386v1 1153 122159104 49 chrUn_DS484726v1 1571 122421248 50 chrUn_DS484366v1 2266 122683392 51 chrUn_DS486002v1 1001 122945536 52 chrUn_DS484770v1 1504 123207680 53 chrUn_DS485354v1 1160 123469824 54 chrUn_DS483728v1 12681 123731968 55 chrUn_DS485403v1 1148 123994112 56 chrUn_DS484964v1 1315 124256256 57 chrUn_DS483921v1 3806 124518400 58 chrUn_DS485181v1 1214 124780544 59 chrUn_DS485602v1 1099 125042688 60 chrUn_DS485783v1 1052 125304832 61 chrUn_DS485547v1 1112 125566976 62 chrUn_DS485280v1 1184 125829120 63 chrUn_DS483976v1 3463 126091264 64 chrUn_DS484972v1 1310 126353408 65 chrUn_DS484407v1 2176 126615552 66 chrUn_DS484446v1 2090 126877696 67 chrUn_DS485906v1 1025 127139840 68 chrUn_DS484769v1 1508 127401984 69 chrUn_DS484527v1 1956 127664128 70 chrUn_DS484933v1 1337 127926272 71 chrUn_DS483748v1 8346 128188416 72 chrUn_DS484460v1 2076 128450560 73 chrUn_DS483711v1 14687 128712704 74 chrUn_DS484039v1 3162 128974848 75 chrUn_DS484339v1 2330 129236992 76 chrUn_DS485457v1 1135 129499136 77 chrUn_DS485643v1 1086 129761280 78 chrUn_DS484689v1 1650 130023424 79 chrUn_DS485822v1 1045 130285568 80 chrUn_DS485678v1 1077 130547712 81 chrUn_DS485150v1 1226 130809856 82 chrUn_DS484746v1 1540 131072000 83 chrUn_DS485957v1 1013 131334144 84 chrUn_DS485541v1 1114 131596288 85 chrUn_DS485741v1 1063 131858432 86 chrUn_DS484490v1 2006 132120576 87 chrUn_DS484881v1 1380 132382720 88 chrUn_DS485539v1 1115 132644864 89 chrUn_DS485958v1 1013 132907008 90 chrUn_DS485748v1 1061 133169152 91 chrUn_DS484822v1 1436 133431296 92 chrUn_DS485421v1 1144 133693440 93 chrUn_DS485296v1 1178 133955584 94 chrUn_DS485337v1 1163 134217728 95 chrUn_DS483700v1 11430 134479872 96 chrUn_DS484511v1 1974 134742016 97 chrUn_DS485973v1 1010 135004160 98 chrUn_DS483719v1 12027 135266304 99 chrUn_DS484571v1 1893 135528448 100 chrUn_DS485733v1 1063 135790592 101 chrUn_CP007102v1 12714 136052736 102 chrUn_DS484052v1 3089 136314880 103 chrUn_DS485073v1 1259 136577024 104 chrUn_DS484257v1 2511 136839168 105 chrUn_DS485376v1 1155 137101312 106 chrUn_DS484485v1 2017 137363456 107 chrUn_DS485572v1 1107 137625600 108 chrUn_DS484816v1 1446 137887744 109 chrUn_DS485925v1 1020 138149888 110 chrUn_DS485239v1 1195 138412032 111 chrUn_DS485853v1 1038 138674176 112 chrUn_DS485443v1 1138 138936320 113 chrUn_DS485381v1 1154 139198464 114 chrUn_DS485339v1 1163 139460608 115 chrUn_DS484707v1 1614 139722752 116 chrUn_DS485675v1 1078 139984896 117 chrUn_DS485065v1 1262 140247040 118 chrUn_DS484546v1 1928 140509184 119 chrUn_DS485846v1 1040 140771328 120 chrUn_DS484667v1 1710 141033472 121 chrUn_DS484756v1 1525 141295616 122 chrUn_DS485558v1 1110 141557760 123 chrUn_DS485703v1 1071 141819904 124 chrUn_DS483977v1 3458 142082048 125 chrUn_DS485341v1 1162 142344192 126 chrUn_DS484226v1 2576 142606336 127 chrUn_DS485505v1 1123 142868480 128 chrUn_DS485451v1 1136 143130624 129 chrUn_DS484736v1 1552 143392768 130 chrUn_DS484304v1 2390 143654912 131 chrUn_DS485024v1 1278 143917056 132 chrUn_DS485808v1 1047 144179200 133 chrUn_DS485578v1 1105 144441344 134 chrUn_DS485029v1 1277 144703488 135 chrUn_DS485634v1 1088 144965632 136 chrUn_DS483877v1 4183 145227776 137 chrUn_DS483723v1 21074 145489920 138 chrUn_DS485038v1 1272 145752064 139 chrUn_DS485788v1 1051 146014208 140 chrUn_DS484496v1 1998 146276352 141 chrUn_DS484841v1 1416 146538496 142 chrUn_DS485123v1 1234 146800640 143 chrUn_DS485261v1 1189 147062784 144 chrUn_DS485673v1 1078 147324928 145 chrUn_DS483879v1 4163 147587072 146 chrUn_DS484716v1 1594 147849216 147 chrUn_DS485907v1 1025 148111360 148 chrUn_DS484100v1 2905 148373504 149 chrUn_DS486008v1 1001 148635648 150 chrUn_DS485747v1 1062 148897792 151 chrUn_DS485891v1 1029 149159936 152 chrUn_DS484329v1 2354 149422080 153 chrUn_DS484653v1 1732 149684224 154 chrUn_DS483692v1 11985 149946368 155 chrUn_DS485387v1 1152 150208512 156 chrUn_DS483938v1 3650 150470656 157 chrUn_DS484073v1 2999 150732800 158 chrUn_DS483957v1 3553 150994944 159 chrUn_DS484050v1 3100 151257088 160 chrUn_DS483694v1 11951 151519232 161 chrUn_DS485407v1 1147 151781376 162 chrUn_DS485357v1 1159 152043520 163 chrUn_DS484122v1 2849 152305664 164 chrUn_DS484548v1 1926 152567808 165 chrUn_DS485254v1 1190 152829952 166 chrUn_DS484988v1 1301 153092096 167 chrUn_DS485205v1 1206 153354240 168 chrUn_DS485793v1 1050 153616384 169 chrUn_DS485496v1 1126 153878528 170 chrUn_DS484904v1 1366 154140672 171 chrUn_DS483707v1 25840 154402816 172 chrUn_DS485365v1 1157 154664960 173 chrUn_DS485789v1 1051 154927104 174 chrUn_DS484842v1 1416 155189248 175 chrUn_DS484180v1 2697 155451392 176 chrUn_DS485333v1 1165 155713536 177 chrUn_DS485954v1 1014 155975680 178 chrUn_DS484202v1 2636 156237824 179 chrUn_DS485825v1 1044 156499968 180 chrUn_DS485285v1 1181 156762112 181 chrUn_DS485223v1 1200 157024256 182 chrUn_DS485313v1 1171 157286400 183 chrUn_DS484567v1 1900 157548544 184 chrUn_DS484040v1 3159 157810688 185 chrUn_DS484475v1 2043 158072832 186 chrUn_DS484168v1 2744 158334976 187 chrUn_DS485711v1 1070 158597120 188 chrUn_DS485475v1 1130 158859264 189 chrUn_DS484532v1 1945 159121408 190 chrUn_DS484751v1 1533 159383552 191 chrUn_DS484229v1 2575 159645696 192 chrUn_DS485870v1 1033 159907840 193 chrUn_DS484787v1 1475 160169984 194 chrUn_DS484277v1 2442 160432128 195 chrUn_DS485304v1 1175 160694272 196 chrUn_DS485794v1 1049 160956416 197 chrUn_DS485226v1 1199 161218560 198 chrUn_DS484470v1 2059 161480704 199 chrUn_DS484303v1 2390 161742848 200 chrUn_DS485506v1 1123 162004992 201 chrUn_DS485522v1 1118 162267136 202 chrUn_DS484505v1 1986 162529280 203 chrUn_DS485854v1 1038 162791424 204 chrUn_DS485342v1 1162 163053568 205 chrUn_DS484739v1 1549 163315712 206 chrUn_DS484452v1 2086 163577856 207 chrUn_DS484720v1 1586 163840000 208 chrUn_DS485722v1 1067 164102144 209 chrUn_DS484522v1 1962 164364288 210 chrUn_DS485781v1 1052 164626432 211 chrUn_DS485542v1 1114 164888576 212 chrUn_DS485821v1 1045 165150720 213 chrUn_DS484350v1 2304 165412864 214 chrUn_DS485623v1 1090 165675008 215 chrUn_DS485989v1 1005 165937152 216 chrUn_DS485743v1 1062 166199296 217 chrUn_DS485872v1 1033 166461440 218 chrUn_DS484190v1 2668 166723584 219 chrUn_DS485240v1 1195 166985728 220 chrUn_DS484844v1 1415 167247872 221 chrUn_DS483695v1 11743 167510016 222 chrUn_DS484798v1 1466 167772160 223 chrUn_DS484096v1 2916 168034304 224 chrUn_DS483799v1 5323 168296448 225 chrUn_DS484843v1 1416 168558592 226 chrUn_DS484659v1 1719 168820736 227 chrUn_DS485864v1 1035 169082880 228 chrUn_DS484825v1 1432 169345024 229 chrUn_DS485229v1 1198 169607168 230 chrUn_DS485773v1 1054 169869312 231 chrUn_DS485659v1 1082 170131456 232 chrUn_DS484993v1 1297 170393600 233 chrUn_DS484896v1 1374 170655744 234 chrUn_DS486005v1 1001 170917888 235 chrUn_DS485047v1 1270 171180032 236 chrUn_DS484069v1 3010 171442176 237 chrUn_DS485138v1 1229 171704320 238 chrUn_DS485929v1 1020 171966464 239 chrUn_DS485886v1 1030 172228608 240 chrUn_DS484493v1 2005 172490752 241 chrUn_DS485661v1 1081 172752896 242 chrUn_DS484866v1 1391 173015040 243 chrUn_DS484772v1 1502 173277184 244 chrUn_DS484727v1 1567 173539328 245 chrUn_DS485838v1 1042 173801472 246 chrUn_DS485701v1 1072 174063616 247 chrUn_DS483936v1 3681 174325760 248 chrUn_DS485581v1 1105 174587904 249 chrUn_DS485019v1 1280 174850048 250 chrUn_DS483940v1 3648 175112192 251 chrUn_DS485810v1 1047 175374336 252 chrUn_DS485982v1 1007 175636480 253 chrUn_DS485165v1 1222 175898624 254 chrUn_DS484404v1 2185 176160768 255 chrUn_DS483736v1 14006 176422912 256 chrUn_DS485654v1 1084 176685056 257 chrUn_DS485415v1 1146 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chrX_DS484564v1_random 1902 470024192 1287 chrX_DS484126v1_random 2841 470286336 1288 chrX_DS484450v1_random 2087 470548480 1289 chrX_DS484610v1_random 1813 470810624 1290 chrX_DS485238v1_random 1195 471072768 1291 chrX_DS484402v1_random 2189 471334912 1292 chrX_DS484558v1_random 1906 471597056 1293 chrX_DS484684v1_random 1678 471859200 1294 chrX_DS484951v1_random 1327 472121344 1295 chrX_DS484679v1_random 1683 472383488 1296 chrX_DS484691v1_random 1643 472645632 1297 chrX_DS484647v1_random 1743 472907776 1298 chrX_DS485913v1_random 1022 473169920 1299 chrX_DS484608v1_random 1818 473432064 1300 chrX_DS484913v1_random 1355 473694208 1301 chrX_DS485358v1_random 1159 473956352 1302 chrX_DS485096v1_random 1244 474218496 1303 chrX_DS485257v1_random 1189 474480640 1304 chrX_DS484547v1_random 1927 474742784 1305 chrX_DS484596v1_random 1843 475004928 1306 chrX_DS484497v1_random 1998 475267072 1307 chrX_DS485967v1_random 1011 475529216 1308 chrX_DS484688v1_random 1657 475791360 1309 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chrX_DS484995v1_random 1296 482082816 1333 chrX_DS484393v1_random 2201 482344960 1334 chrX_DS484911v1_random 1355 482607104 1335 chrX_DS485305v1_random 1174 482869248 1336 chrX_DS484362v1_random 2273 483131392 1337 chrX_DS484628v1_random 1785 483393536 1338 chrX_DS484604v1_random 1829 483655680 1339 chrX_DS484201v1_random 2637 483917824 1340 chrX_DS484411v1_random 2161 484179968 1341 chrX_DS485855v1_random 1037 484442112 1342 chrX_DS484811v1_random 1452 484704256 1343 chrX_DS484504v1_random 1986 484966400 1344 chrX_DS484695v1_random 1637 485228544 1345 chrX_DS484670v1_random 1704 485490688 1346 chrX_DS484261v1_random 2500 485752832 1347 chrX_DS485660v1_random 1082 486014976 1348 chrX_DS485164v1_random 1223 486277120 1349 chrX_DS484609v1_random 1818 486539264 1350 chrX_DS485941v1_random 1018 486801408 1351 chrX_DS484545v1_random 1928 487063552 1352 chrX_DS484397v1_random 2196 487325696 1353 chrX_DS484368v1_random 2259 487587840 1354 chrX_DS484198v1_random 2641 487849984 1355 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chrX_DS485879v1_random 1031 530317312 1517 chrX_DS484702v1_random 1623 530579456 1518 chrX_DS484636v1_random 1769 530841600 1519 chrX_DS485762v1_random 1057 531103744 1520 chrX_DS485012v1_random 1284 531365888 1521 chrX_DS484474v1_random 2044 531628032 1522 chrX_DS485278v1_random 1184 531890176 1523 chrX_DS484322v1_random 2366 532152320 1524 chrX_DS484974v1_random 1309 532414464 1525 chrX_DS484135v1_random 2825 532676608 1526 chrX_DS484826v1_random 1432 532938752 1527 chrX_DS485816v1_random 1046 533200896 1528 chrX_DS483665v1_random 13234 533463040 1529 chrX_DS484067v1_random 3024 533725184 1530 chrX_DS485672v1_random 1078 533987328 1531 chrX_DS484005v1_random 3275 534249472 1532 chrX_DS483971v1_random 3478 534511616 1533 chrX_DS485303v1_random 1175 534773760 1534 chrX_DS484143v1_random 2814 535035904 1535 chrX_DS484346v1_random 2317 535298048 1536 chrX_DS485299v1_random 1178 535560192 1537 chrX_DS484384v1_random 2220 535822336 1538 chrX_DS484767v1_random 1510 536084480 1539 chrX_DS485857v1_random 1037 536346624 1540 chrX_DS485072v1_random 1260 536608768 1541 chrX_DS484319v1_random 2372 536870912 1542 chrX_DS485225v1_random 1200 537133056 1543 chrX_DS485268v1_random 1186 537395200 1544 chrX_DS484293v1_random 2420 537657344 1545 chrX_DS484715v1_random 1595 537919488 1546 chrX_DS485454v1_random 1135 538181632 1547 chrX_DS484130v1_random 2834 538443776 1548 chrX_DS484359v1_random 2284 538705920 1549 chrX_DS483784v1_random 5832 538968064 1550 chrX_DS485119v1_random 1235 539230208 1551 chrX_DS484462v1_random 2068 539492352 1552 chrX_DS485592v1_random 1102 539754496 1553 chrX_DS485647v1_random 1086 540016640 1554 chrX_DS484088v1_random 2937 540278784 1555 chrX_DS485078v1_random 1257 540540928 1556 chrX_DS483905v1_random 3926 540803072 1557 chrX_DS484963v1_random 1315 541065216 1558 chrX_DS483685v1_random 12187 541327360 1559 chrX_DS484749v1_random 1534 541589504 1560 chrX_DS484356v1_random 2289 541851648 1561 chrX_DS485418v1_random 1145 542113792 1562 chrX_DS484125v1_random 2844 542375936 1563 chrX_DS484131v1_random 2833 542638080 1564 chrX_DS484328v1_random 2355 542900224 1565 chrX_DS483843v1_random 4515 543162368 1566 chrX_DS484468v1_random 2060 543424512 1567 chrX_DS485978v1_random 1008 543686656 1568 chrX_DS485054v1_random 1265 543948800 1569 chrX_DS483955v1_random 3553 544210944 1570 chrX_DS483897v1_random 3984 544473088 1571 chrX_DS484361v1_random 2282 544735232 1572 chrX_DS485049v1_random 1269 544997376 1573 chrX_DS484978v1_random 1306 545259520 1574 chrX_DS484002v1_random 3290 545521664 1575 chrX_DS485364v1_random 1158 545783808 1576 chrX_DS484345v1_random 2318 546045952 1577 chrX_DS485310v1_random 1173 546308096 1578 chrX_DS485281v1_random 1184 546570240 1579 chrX_DS485597v1_random 1100 546832384 1580 chrX_DS485345v1_random 1161 547094528 1581 chrX_DS484417v1_random 2139 547356672 1582 chrX_DS483698v1_random 11522 547618816 1583 chrX_DS484620v1_random 1798 547880960 1584 chrX_DS485360v1_random 1159 548143104 1585 chrX_DS485562v1_random 1109 548405248 1586 chrX_DS485186v1_random 1212 548667392 1587 chrX_DS485778v1_random 1053 548929536 1588 chrX_DS485201v1_random 1208 549191680 1589 chrX_DS485384v1_random 1153 549453824 1590 chrX_DS485707v1_random 1071 549715968 1591 chrX_DS483809v1_random 5057 549978112 1592 chrX_DS484857v1_random 1402 550240256 1593 chrX_DS484268v1_random 2475 550502400 1594 chrX_DS484203v1_random 2635 550764544 1595 chrX_DS484970v1_random 1310 551026688 1596 chrX_DS483789v1_random 5555 551288832 1597 chrX_DS484719v1_random 1586 551550976 1598 chrX_DS484297v1_random 2413 551813120 1599 chrX_DS484124v1_random 2846 552075264 1600 chrX_DS485044v1_random 1271 552337408 1601 chrX_DS484990v1_random 1301 552599552 1602 chrX_DS484273v1_random 2463 552861696 1603 chrX_DS485017v1_random 1281 553123840 1604 chrX_DS484997v1_random 1294 553385984 1605 chrX_DS483888v1_random 4072 553648128 1606 chrX_DS485459v1_random 1134 553910272 1607 chrX_DS485651v1_random 1084 554172416 1608 chrX_DS484907v1_random 1361 554434560 1609 chrX_DS485549v1_random 1112 554696704 1610 chrX_DS484732v1_random 1556 554958848 1611 chrX_DS484953v1_random 1326 555220992 1612 chrX_DS483660v1_random 13394 555483136 1613 chrX_DS484615v1_random 1803 555745280 1614 chrX_DS484697v1_random 1636 556007424 1615 chrX_DS484216v1_random 2603 556269568 1616 chrX_DS485287v1_random 1181 556531712 1617 chrX_DS484382v1_random 2223 556793856 1618 chrX_DS484187v1_random 2671 557056000 1619 chrX_DS485756v1_random 1058 557318144 1620 chrX_DS484185v1_random 2686 557580288 1621 chrX_DS485550v1_random 1112 557842432 1622 chrX_DS483795v1_random 5387 558104576 1623 chrX_DS484666v1_random 1710 558366720 1624 chrX_DS483666v1_random 13108 558628864 1625 chrX_DS484371v1_random 2247 558891008 1626 chrX_DS483907v1_random 3921 559153152 1627 chrX_DS484387v1_random 2210 559415296 1628 chrX_DS484316v1_random 2379 559677440 1629 chrX_DS483803v1_random 5232 559939584 1630 chrX_DS483950v1_random 3582 560201728 1631 chrX_DS483885v1_random 4085 560463872 1632 chrX_DS483928v1_random 3730 560726016 1633 chrX_DS484326v1_random 2357 560988160 1634 chrX_DS483745v1_random 9368 561250304 1635 chrX_DS483892v1_random 4013 561512448 1636 chrX_DS484061v1_random 3059 561774592 1637 chrX_DS484330v1_random 2353 562036736 1638 chrX_DS484140v1_random 2819 562298880 1639 chrX_DS484051v1_random 3100 562561024 1640 chrX_DS483893v1_random 4012 562823168 1641 chrX_DS484075v1_random 2996 563085312 1642 chrX_DS483948v1_random 3602 563347456 1643 chrX_DS484081v1_random 2964 563609600 1644 chrX_DS484586v1_random 1868 563871744 1645 chrX_DS484278v1_random 2439 564133888 1646 chrX_DS484046v1_random 3123 564396032 1647 chrX_DS484133v1_random 2829 564658176 1648 chrX_DS483909v1_random 3913 564920320 1649 chrX_DS484488v1_random 2009 565182464 1650 chrX_DS483974v1_random 3473 565444608 1651 chrX_DS483903v1_random 3941 565706752 1652 chrX_DS484538v1_random 1936 565968896 1653 chrX_DS483946v1_random 3603 566231040 1654 chrX_DS484556v1_random 1916 566493184 1655 chrX_DS483851v1_random 4395 566755328 1656 chrX_DS483926v1_random 3745 567017472 1657 chrX_DS484563v1_random 1903 567279616 1658 chrX_DS483923v1_random 3775 567541760 1659 chrX_DS484166v1_random 2750 567803904 1660 chrX_DS484341v1_random 2328 568066048 1661 chrX_DS484099v1_random 2910 568328192 1662 chrX_DS484060v1_random 3065 568590336 1663 chrX_DS484132v1_random 2830 568852480 1664 chrX_DS483821v1_random 4879 569114624 1665 chrX_DS483818v1_random 4917 569376768 1666 chrX_DS484562v1_random 1903 569638912 1667 chrX_DS483969v1_random 3498 569901056 1668 chrX_DS484026v1_random 3201 570163200 1669 chrX_CP007104v1_random 27447 570425344 1670 chrX_CP007103v1_random 33320 570687488 1671 chrY 3667352 570949632 1672 chrY_DS485113v1_random 1237 574619648 1673 chrY_DS485267v1_random 1186 574881792 1674 chrY_DS484992v1_random 1297 575143936 1675 chrY_DS485594v1_random 1101 575406080 1676 chrY_DS484805v1_random 1459 575668224 1677 chrY_DS484021v1_random 3213 575930368 1678 chrY_DS484184v1_random 2688 576192512 1679 chrY_DS485013v1_random 1284 576454656 1680 chrY_DS485016v1_random 1282 576716800 1681 chrY_DS484142v1_random 2815 576978944 1682 chrY_DS484530v1_random 1947 577241088 1683 chrY_DS485460v1_random 1134 577503232 1684 chrY_DS486003v1_random 1001 577765376 1685 chrY_DS485375v1_random 1155 578027520 1686 chrY_DS484233v1_random 2565 578289664 1687 chrY_DS484270v1_random 2473 578551808 1688 chrY_DS485865v1_random 1035 578813952 1689 chrY_DS484643v1_random 1751 579076096 1690 chrY_DS484351v1_random 2303 579338240 1691 chrY_DS484146v1_random 2799 579600384 1692 chrY_DS483959v1_random 3537 579862528 1693 chrY_DS485795v1_random 1049 580124672 1694 chrY_DS484259v1_random 2508 580386816 1695 chrY_DS483778v1_random 5984 580648960 1696 chrY_DS484681v1_random 1683 580911104 1697 chrY_DS485927v1_random 1020 581173248 1698 chrY_DS484986v1_random 1303 581435392 1699 chrY_DS484164v1_random 2762 581697536 1700 chrY_DS485534v1_random 1116 581959680 1701 chrY_DS484250v1_random 2521 582221824 1702 chrY_DS485070v1_random 1260 582483968 1703 chrY_DS485423v1_random 1144 582746112 1704 chrY_DS485873v1_random 1033 583008256 1705 chrY_DS485736v1_random 1063 583270400 1706 chrY_DS485051v1_random 1268 583532544 1707 chrY_DS483987v1_random 3375 583794688 1708 chrY_DS485159v1_random 1224 584056832 1709 chrY_DS484266v1_random 2477 584318976 1710 chrY_DS485646v1_random 1086 584581120 1711 chrY_DS484781v1_random 1485 584843264 1712 chrY_DS485561v1_random 1109 585105408 1713 chrY_DS484056v1_random 3077 585367552 1714 chrY_DS485166v1_random 1222 585629696 1715 chrY_DS485427v1_random 1142 585891840 1716 chrY_DS485894v1_random 1029 586153984 1717 chrY_DS484631v1_random 1775 586416128 1718 chrY_DS485840v1_random 1041 586678272 1719 chrY_DS485492v1_random 1126 586940416 1720 chrY_DS485875v1_random 1032 587202560 1721 chrY_DS484492v1_random 2005 587464704 1722 chrY_DS485483v1_random 1129 587726848 1723 chrY_DS485250v1_random 1192 587988992 1724 chrY_DS485388v1_random 1152 588251136 1725 chrY_DS484818v1_random 1443 588513280 1726 chrY_DS485575v1_random 1106 588775424 1727 chrY_DS485696v1_random 1073 589037568 1728 chrY_DS484675v1_random 1690 589299712 1729 chrY_DS484665v1_random 1712 589561856 1730 chrY_DS483966v1_random 3502 589824000 1731 chrY_DS485749v1_random 1060 590086144 1732 chrY_DS485752v1_random 1059 590348288 1733 chrY_DS484197v1_random 2642 590610432 1734 chrY_DS485158v1_random 1224 590872576 1735 chrY_DS484706v1_random 1619 591134720 1736 chrY_DS484574v1_random 1890 591396864 1737 chrY_DS484637v1_random 1766 591659008 1738 chrY_DS485732v1_random 1064 591921152 1739 chrY_DS485374v1_random 1155 592183296 1740 chrY_DS485359v1_random 1159 592445440 1741 chrY_DS485523v1_random 1118 592707584 1742 chrY_DS485236v1_random 1195 592969728 1743 chrY_DS485399v1_random 1148 593231872 1744 chrY_DS484049v1_random 3102 593494016 1745 chrY_DS485767v1_random 1056 593756160 1746 chrY_DS484037v1_random 3173 594018304 1747 chrY_DS485975v1_random 1010 594280448 1748 chrY_DS485560v1_random 1110 594542592 1749 chrY_DS484249v1_random 2522 594804736 1750 chrY_DS485938v1_random 1019 595066880 1751 chrY_DS485329v1_random 1166 595329024 1752 chrY_DS484523v1_random 1961 595591168 1753 chrY_DS485042v1_random 1271 595853312 1754 chrY_DS485901v1_random 1027 596115456 1755 chrY_DS484863v1_random 1393 596377600 1756 chrY_DS485343v1_random 1162 596639744 1757 chrY_DS485772v1_random 1054 596901888 1758 chrY_DS484994v1_random 1297 597164032 1759 chrY_DS485328v1_random 1166 597426176 1760 chrY_DS484336v1_random 2342 597688320 1761 chrY_DS485178v1_random 1218 597950464 1762 chrY_DS485409v1_random 1147 598212608 1763 chrY_DS485764v1_random 1056 598474752 1764 chrY_DS484128v1_random 2836 598736896 1765 chrY_DS485739v1_random 1063 598999040 1766 chrY_DS485452v1_random 1136 599261184 1767 chrY_DS484909v1_random 1356 599523328 1768 chrY_DS485641v1_random 1087 599785472 1769 chrY_DS484956v1_random 1322 600047616 1770 chrY_DS485320v1_random 1169 600309760 1771 chrY_DS485302v1_random 1176 600571904 1772 chrY_DS485440v1_random 1139 600834048 1773 chrY_DS485685v1_random 1075 601096192 1774 chrY_DS483967v1_random 3499 601358336 1775 chrY_DS484908v1_random 1360 601620480 1776 chrY_DS484945v1_random 1330 601882624 1777 chrY_DS485718v1_random 1068 602144768 1778 chrY_DS485099v1_random 1241 602406912 1779 chrY_DS485839v1_random 1042 602669056 1780 chrY_DS484589v1_random 1863 602931200 1781 chrY_DS485048v1_random 1270 603193344 1782 chrY_DS485363v1_random 1158 603455488 1783 chrY_DS484103v1_random 2899 603717632 1784 chrY_DS485532v1_random 1116 603979776 1785 chrY_DS484942v1_random 1333 604241920 1786 chrY_DS484983v1_random 1304 604504064 1787 chrY_DS484680v1_random 1683 604766208 1788 chrY_DS484441v1_random 2096 605028352 1789 chrY_DS485604v1_random 1098 605290496 1790 chrY_DS485960v1_random 1012 605552640 1791 chrY_DS485974v1_random 1010 605814784 1792 chrY_DS484063v1_random 3046 606076928 1793 chrY_DS485972v1_random 1010 606339072 1794 chrY_DS484043v1_random 3154 606601216 1795 chrY_DS485625v1_random 1090 606863360 1796 chrY_DS485318v1_random 1170 607125504 1797 chrY_DS485963v1_random 1012 607387648 1798 chrY_DS485776v1_random 1053 607649792 1799 chrY_DS485137v1_random 1230 607911936 1800 chrY_DS485315v1_random 1171 608174080 1801 chrY_DS484696v1_random 1637 608436224 1802 chrY_DS483742v1_random 11763 608698368 1803 chrY_DS483790v1_random 5520 608960512 1804 chrY_DS484171v1_random 2728 609222656 1805 chrY_DS485097v1_random 1243 609484800 1806 chrY_DS484181v1_random 2694 609746944 1807 chrY_CP007119v1_random 11498 610009088 1808 chrY_DS485888v1_random 1029 610271232 1809 chrY_DS484531v1_random 1946 610533376 1810 chrY_DS485470v1_random 1132 610795520 1811 chrY_DS485473v1_random 1131 611057664 1812 chrY_DS485755v1_random 1058 611319808 1813 chrY_DS485892v1_random 1029 611581952 1814 chrY_DS485552v1_random 1111 611844096 1815 chrY_DS485288v1_random 1181 612106240 1816 chrY_DS485014v1_random 1283 612368384 1817 chrY_DS484757v1_random 1525 612630528 1818 chrY_DS484820v1_random 1440 612892672 1819 chrY_DS485422v1_random 1144 613154816 1820 chrY_DS484876v1_random 1382 613416960 1821 chrY_DS485858v1_random 1037 613679104 1822 chrY_DS485512v1_random 1122 613941248 1823 chrY_DS485143v1_random 1227 614203392 1824 chrY_DS484390v1_random 2206 614465536 1825 chrY_DS485416v1_random 1146 614727680 1826 chrY_DS484674v1_random 1690 614989824 1827 chrY_DS484465v1_random 2063 615251968 1828 chrY_DS485436v1_random 1140 615514112 1829 chrY_DS485450v1_random 1136 615776256 1830 chrY_DS484830v1_random 1429 616038400 1831 chrY_DS483988v1_random 3374 616300544 1832 chrY_DS484807v1_random 1456 616562688 1833 chrY_DS485956v1_random 1014 616824832 1834 chrY_DS485283v1_random 1182 617086976 1835 chrY_DS485335v1_random 1163 617349120 1836 chrY_DS485698v1_random 1072 617611264 1837 chrY_DS484641v1_random 1756 617873408 1838 chrY_DS485430v1_random 1141 618135552 1839 chrY_DS485316v1_random 1171 618397696 1840 chrY_DS484377v1_random 2232 618659840 1841 chrY_DS485786v1_random 1051 618921984 1842 chrY_DS484924v1_random 1341 619184128 1843 chrY_DS485885v1_random 1030 619446272 1844 chrY_DS485849v1_random 1039 619708416 1845 chrY_DS485219v1_random 1202 619970560 1846 chrY_DS484875v1_random 1383 620232704 1847 chrY_DS484175v1_random 2709 620494848 1848 chrY_DS485028v1_random 1277 620756992 1849 chrY_DS483725v1_random 13079 621019136 1850 chrY_DS483931v1_random 3713 621281280 1851 chrY_DS483996v1_random 3341 621543424 1852 chrY_DS483875v1_random 4197 621805568 1853 chrY_DS483889v1_random 4059 622067712 1854 chrY_DS484029v1_random 3195 622329856 1855 chrY_DS484094v1_random 2922 622592000 1856 chrY_DS483677v1_random 12513 622854144 1857 chrY_DS483788v1_random 5564 623116288 1858 chrY_DS483690v1_random 12001 623378432 1859 chrY_CP007109v1_random 66439 623640576 1860 chrY_CP007110v1_random 33316 623902720 1861 chrY_CP007111v1_random 34521 624164864 1862 chrY_CP007112v1_random 39041 624427008 1863 chrY_CP007113v1_random 34359 624689152 1864 chrY_CP007114v1_random 31460 624951296 1865 chrY_CP007115v1_random 21921 625213440 1866 chrY_CP007116v1_random 25805 625475584 1867 chrY_CP007117v1_random 24380 625737728 1868 chrY_CP007118v1_random 44104 625999872 1869 chrY_CP007107v1_random 73091 626262016 1870 chrY_CP007108v1_random 66731 626524160 --sjdbOverhang = 99 taken from the generated genome Started loading the genome: Fri Aug 1 01:45:03 2025 Genome: size given as a parameter = 638756154 SA: size given as a parameter = 1274482468 /SAindex: size given as a parameter = 1 Read from SAindex: genomeSAindexNbases=14 nSAi=357913940 nGenome=638756154; nSAbyte=1274482468 GstrandBit=32 SA number of indices=308965446 Shared memory is not used for genomes. Allocated a private copy of the genome. Genome file size: 638756154 bytes; state: good=1 eof=0 fail=0 bad=0 Loading Genome ... done! state: good=1 eof=0 fail=0 bad=0; loaded 638756154 bytes SA file size: 1274482468 bytes; state: good=1 eof=0 fail=0 bad=0 Loading SA ... done! state: good=1 eof=0 fail=0 bad=0; loaded 1274482468 bytes Loading SAindex ... done: 1565873619 bytes Finished loading the genome: Fri Aug 1 01:45:18 2025 Processing splice junctions database sjdbN=60150, sjdbOverhang=99 To accomodate alignIntronMax=1000000 redefined winBinNbits=18 To accomodate alignIntronMax=1000000 and alignMatesGapMax=1000000, redefined winFlankNbins=4 and winAnchorDistNbins=8 Aug 01 01:45:18 Loaded database junctions from the generated genome /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90-STAR/sjdbList.out.tab: 60150 total junctions Aug 01 01:45:18 ..... processing annotations GTF WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 3244 3576 . - . gene_id "FBgn0261386"; transcript_id "FBtr0304153"; exon_number "1"; gene_name "Gpa2"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "Gpa2-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0304153-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 3093 3185 . - . gene_id "FBgn0261386"; transcript_id "FBtr0304153"; exon_number "2"; gene_name "Gpa2"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "Gpa2-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0304153-E2"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 53442 53542 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113686"; exon_number "1"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 56891 57267 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113686"; exon_number "2"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E2"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 57320 57604 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113686"; exon_number "3"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E3"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 57659 57923 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113686"; exon_number "4"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E4"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 83719 83841 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113686"; exon_number "5"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E5"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 83902 85529 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113686"; exon_number "6"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E6"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 56702 56827 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113685"; exon_number "1"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RA"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113685-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 56891 57267 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113685"; exon_number "2"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RA"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E2"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 57320 57604 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113685"; exon_number "3"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RA"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E3"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 57659 57923 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113685"; exon_number "4"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RA"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E4"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 83719 83841 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113685"; exon_number "5"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RA"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113686-E5"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'Unmapped_Scaffold_8' not found in Genome fasta files for line: Unmapped_Scaffold_8 FlyBase exon 83902 85431 . + . gene_id "FBgn0040038"; transcript_id "FBtr0113685"; exon_number "6"; gene_name "klhl10"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "klhl10-RA"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0113685-E6"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 4492 5312 . - . gene_id "FBgn0267508"; transcript_id "FBtr0346886"; exon_number "1"; gene_name "28SrRNA-Psi:CR45848"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "28SrRNA-Psi:CR45848-RA"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0346886-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 16375 16497 . + . gene_id "FBgn0267509"; transcript_id "FBtr0346869"; exon_number "1"; gene_name "5.8SrRNA-Psi:CR45849"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "5.8SrRNA-Psi:CR45849-RA"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0346869-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 16526 16555 . + . gene_id "FBgn0267510"; transcript_id "FBtr0346870"; exon_number "1"; gene_name "2SrRNA-Psi:CR45850"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "2SrRNA-Psi:CR45850-RA"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0346870-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 16936 19585 . + . gene_id "FBgn0085753"; transcript_id "FBtr0346871"; exon_number "1"; gene_name "28SrRNA-Psi:CR40596"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "28SrRNA-Psi:CR40596-RB"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0346871-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 22816 22940 . + . gene_id "FBgn0085753"; transcript_id "FBtr0346871"; exon_number "2"; gene_name "28SrRNA-Psi:CR40596"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "28SrRNA-Psi:CR40596-RB"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0346871-E2"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 35941 36403 . + . gene_id "FBgn0267511"; transcript_id "FBtr0346872"; exon_number "1"; gene_name "28SrRNA-Psi:CR45851"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "28SrRNA-Psi:CR45851-RA"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0346872-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 37483 38740 . + . gene_id "FBgn0267511"; transcript_id "FBtr0346872"; exon_number "2"; gene_name "28SrRNA-Psi:CR45851"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "28SrRNA-Psi:CR45851-RA"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0346872-E2"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 42623 49485 . + . gene_id "FBgn0267505"; transcript_id "FBtr0346873"; exon_number "1"; gene_name "pre-rRNA:CR45845"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "pre-rRNA:CR45845-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346873-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 43484 45478 . + . gene_id "FBgn0085802"; transcript_id "FBtr0346874"; exon_number "1"; gene_name "18SrRNA:CR41548"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "18SrRNA:CR41548-RB"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346874-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 46205 46327 . + . gene_id "FBgn0267512"; transcript_id "FBtr0346887"; exon_number "1"; gene_name "5.8SrRNA:CR45852"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "5.8SrRNA:CR45852-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346887-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 46356 46385 . + . gene_id "FBgn0267496"; transcript_id "FBtr0346875"; exon_number "1"; gene_name "2SrRNA:CR45836"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "2SrRNA:CR45836-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346875-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 46771 49485 . + . gene_id "FBgn0267497"; transcript_id "FBtr0346876"; exon_number "1"; gene_name "28SrRNA:CR45837"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "28SrRNA:CR45837-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346876-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 55104 59294 . + . gene_id "FBgn0267506"; transcript_id "FBtr0346877"; exon_number "1"; gene_name "pre-rRNA:CR45846"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "pre-rRNA:CR45846-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346877-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 55965 57959 . + . gene_id "FBgn0267498"; transcript_id "FBtr0346878"; exon_number "1"; gene_name "18SrRNA:CR45838"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "18SrRNA:CR45838-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346878-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 58654 58776 . + . gene_id "FBgn0267499"; transcript_id "FBtr0346879"; exon_number "1"; gene_name "5.8SrRNA:CR45839"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "5.8SrRNA:CR45839-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346879-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 58805 58834 . + . gene_id "FBgn0267500"; transcript_id "FBtr0346880"; exon_number "1"; gene_name "2SrRNA:CR45840"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "2SrRNA:CR45840-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346880-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 66807 74924 . + . gene_id "FBgn0267507"; transcript_id "FBtr0346881"; exon_number "1"; gene_name "pre-rRNA:CR45847"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "pre-rRNA:CR45847-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346881-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 67668 69662 . + . gene_id "FBgn0267501"; transcript_id "FBtr0346882"; exon_number "1"; gene_name "18SrRNA:CR45841"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "18SrRNA:CR45841-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346882-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 70389 70511 . + . gene_id "FBgn0267502"; transcript_id "FBtr0346883"; exon_number "1"; gene_name "5.8SrRNA:CR45842"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "5.8SrRNA:CR45842-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346883-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 70540 70569 . + . gene_id "FBgn0267503"; transcript_id "FBtr0346884"; exon_number "1"; gene_name "2SrRNA:CR45843"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "2SrRNA:CR45843-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346884-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome 'rDNA' not found in Genome fasta files for line: rDNA FlyBase exon 70955 74924 . + . gene_id "FBgn0267504"; transcript_id "FBtr0346885"; exon_number "1"; gene_name "28SrRNA:CR45844"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "28SrRNA:CR45844-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0346885-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280328' not found in Genome fasta files for line: 211000022280328 FlyBase exon 9435 9527 . - . gene_id "FBgn0085692"; transcript_id "FBtr0347010"; exon_number "1"; gene_name "CG41561"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "CG41561-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0347010-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280328' not found in Genome fasta files for line: 211000022280328 FlyBase exon 9154 9380 . - . gene_id "FBgn0085692"; transcript_id "FBtr0347010"; exon_number "2"; gene_name "CG41561"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "CG41561-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0347010-E2"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280328' not found in Genome fasta files for line: 211000022280328 FlyBase exon 7582 8551 . - . gene_id "FBgn0085692"; transcript_id "FBtr0347010"; exon_number "3"; gene_name "CG41561"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "CG41561-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0347010-E3"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280328' not found in Genome fasta files for line: 211000022280328 FlyBase exon 7386 7523 . - . gene_id "FBgn0085692"; transcript_id "FBtr0347010"; exon_number "4"; gene_name "CG41561"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "CG41561-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0347010-E4"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278498' not found in Genome fasta files for line: 211000022278498 FlyBase exon 13189 13940 . - . gene_id "FBgn0085828"; transcript_id "FBtr0114286"; exon_number "1"; gene_name "CR42195"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR42195-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114286-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278875' not found in Genome fasta files for line: 211000022278875 FlyBase exon 1 2099 . + . gene_id "FBgn0085816"; transcript_id "FBtr0114274"; exon_number "1"; gene_name "CR41606"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41606-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114274-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279446' not found in Genome fasta files for line: 211000022279446 FlyBase exon 1 1266 . + . gene_id "FBgn0085817"; transcript_id "FBtr0114275"; exon_number "1"; gene_name "CR41607"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41607-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114275-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278279' not found in Genome fasta files for line: 211000022278279 FlyBase exon 11634 12709 . - . gene_id "FBgn0267594"; transcript_id "FBtr0347033"; exon_number "1"; gene_name "CR45932"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "CR45932-RA"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0347033-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279681' not found in Genome fasta files for line: 211000022279681 FlyBase exon 401 1054 . + . gene_id "FBgn0259837"; transcript_id "FBtr0300134"; exon_number "1"; gene_name "Su(Ste):CR42406"; gene_source "FlyBase"; gene_biotype "lincRNA"; transcript_name "Su(Ste):CR42406-RA"; transcript_source "FlyBase"; transcript_biotype "lincRNA"; exon_id "FBtr0300134-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280645' not found in Genome fasta files for line: 211000022280645 FlyBase exon 1 765 . + . gene_id "FBgn0085777"; transcript_id "FBtr0114228"; exon_number "1"; gene_name "CR40959"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40959-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114228-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280494' not found in Genome fasta files for line: 211000022280494 FlyBase exon 1 1443 . - . gene_id "FBgn0259839"; transcript_id "FBtr0300139"; exon_number "1"; gene_name "Su(Ste):CR42408"; gene_source "FlyBase"; gene_biotype "lincRNA"; transcript_name "Su(Ste):CR42408-RA"; transcript_source "FlyBase"; transcript_biotype "lincRNA"; exon_id "FBtr0300139-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280494' not found in Genome fasta files for line: 211000022280494 FlyBase exon 2048 3374 . - . gene_id "FBgn0259840"; transcript_id "FBtr0300138"; exon_number "1"; gene_name "Su(Ste):CR42409"; gene_source "FlyBase"; gene_biotype "lincRNA"; transcript_name "Su(Ste):CR42409-RA"; transcript_source "FlyBase"; transcript_biotype "lincRNA"; exon_id "FBtr0300138-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280703' not found in Genome fasta files for line: 211000022280703 FlyBase exon 699 1770 . + . gene_id "FBgn0267596"; transcript_id "FBtr0347035"; exon_number "1"; gene_name "CR45934"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "CR45934-RA"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0347035-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280481' not found in Genome fasta files for line: 211000022280481 FlyBase exon 1230 2419 . + . gene_id "FBgn0259842"; transcript_id "FBtr0300141"; exon_number "1"; gene_name "Su(Ste):CR42411"; gene_source "FlyBase"; gene_biotype "lincRNA"; transcript_name "Su(Ste):CR42411-RA"; transcript_source "FlyBase"; transcript_biotype "lincRNA"; exon_id "FBtr0300141-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279188' not found in Genome fasta files for line: 211000022279188 FlyBase exon 1449 1489 . + . gene_id "FBgn0259817"; transcript_id "FBtr0300105"; exon_number "1"; gene_name "SteXh:CG42398"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "SteXh:CG42398-RA"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0300105-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279188' not found in Genome fasta files for line: 211000022279188 FlyBase exon 1547 2047 . + . gene_id "FBgn0259817"; transcript_id "FBtr0300105"; exon_number "2"; gene_name "SteXh:CG42398"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "SteXh:CG42398-RA"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0300105-E2"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279188' not found in Genome fasta files for line: 211000022279188 FlyBase exon 2108 2180 . + . gene_id "FBgn0259817"; transcript_id "FBtr0300105"; exon_number "3"; gene_name "SteXh:CG42398"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "SteXh:CG42398-RA"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0300105-E3"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278724' not found in Genome fasta files for line: 211000022278724 FlyBase exon 930 2904 . - . gene_id "FBgn0085805"; transcript_id "FBtr0114259"; exon_number "1"; gene_name "CR41583"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41583-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114259-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278436' not found in Genome fasta files for line: 211000022278436 FlyBase exon 1551 2815 . - . gene_id "FBgn0259849"; transcript_id "FBtr0300146"; exon_number "1"; gene_name "Su(Ste):CR42418"; gene_source "FlyBase"; gene_biotype "lincRNA"; transcript_name "Su(Ste):CR42418-RA"; transcript_source "FlyBase"; transcript_biotype "lincRNA"; exon_id "FBtr0300146-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278282' not found in Genome fasta files for line: 211000022278282 FlyBase exon 518 2511 . + . gene_id "FBgn0085807"; transcript_id "FBtr0114261"; exon_number "1"; gene_name "CR41590"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41590-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114261-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278664' not found in Genome fasta files for line: 211000022278664 FlyBase exon 1 1088 . - . gene_id "FBgn0085755"; transcript_id "FBtr0114205"; exon_number "1"; gene_name "CR40611"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40611-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114205-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280133' not found in Genome fasta files for line: 211000022280133 FlyBase exon 220 2161 . - . gene_id "FBgn0085808"; transcript_id "FBtr0114262"; exon_number "1"; gene_name "CR41591"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41591-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114262-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278522' not found in Genome fasta files for line: 211000022278522 FlyBase exon 390 2086 . - . gene_id "FBgn0085744"; transcript_id "FBtr0114194"; exon_number "1"; gene_name "CR40561"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40561-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114194-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278879' not found in Genome fasta files for line: 211000022278879 FlyBase exon 1 559 . + . gene_id "FBgn0085760"; transcript_id "FBtr0114210"; exon_number "1"; gene_name "CR40641"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40641-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114210-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278449' not found in Genome fasta files for line: 211000022278449 FlyBase exon 1245 1635 . - . gene_id "FBgn0085494"; transcript_id "FBtr0308947"; exon_number "1"; gene_name "Mst77Y-16Psi"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "Mst77Y-16Psi-RC"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0308947-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278449' not found in Genome fasta files for line: 211000022278449 FlyBase exon 528 1187 . - . gene_id "FBgn0085494"; transcript_id "FBtr0308947"; exon_number "2"; gene_name "Mst77Y-16Psi"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "Mst77Y-16Psi-RC"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0308947-E2"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280347' not found in Genome fasta files for line: 211000022280347 FlyBase exon 7 354 . - . gene_id "FBgn0085540"; transcript_id "FBtr0302352"; exon_number "1"; gene_name "CR40947"; gene_source "FlyBase"; gene_biotype "lincRNA"; transcript_name "CR40947-RB"; transcript_source "FlyBase"; transcript_biotype "lincRNA"; exon_id "FBtr0302352-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278298' not found in Genome fasta files for line: 211000022278298 FlyBase exon 648 1614 . + . gene_id "FBgn0085746"; transcript_id "FBtr0114196"; exon_number "1"; gene_name "CR40571"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40571-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114196-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278307' not found in Genome fasta files for line: 211000022278307 FlyBase exon 1 824 . - . gene_id "FBgn0085751"; transcript_id "FBtr0114201"; exon_number "1"; gene_name "CR40582"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40582-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114201-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279529' not found in Genome fasta files for line: 211000022279529 FlyBase exon 1 838 . + . gene_id "FBgn0085773"; transcript_id "FBtr0114223"; exon_number "1"; gene_name "CR40766"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40766-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114223-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022280341' not found in Genome fasta files for line: 211000022280341 FlyBase exon 1 740 . - . gene_id "FBgn0267595"; transcript_id "FBtr0347034"; exon_number "1"; gene_name "CR45933"; gene_source "FlyBase"; gene_biotype "pseudogene"; transcript_name "CR45933-RA"; transcript_source "FlyBase"; transcript_biotype "pseudogene"; exon_id "FBtr0347034-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279392' not found in Genome fasta files for line: 211000022279392 FlyBase exon 1 1356 . - . gene_id "FBgn0259864"; transcript_id "FBtr0300161"; exon_number "1"; gene_name "Su(Ste):CR42433"; gene_source "FlyBase"; gene_biotype "lincRNA"; transcript_name "Su(Ste):CR42433-RA"; transcript_source "FlyBase"; transcript_biotype "lincRNA"; exon_id "FBtr0300161-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278604' not found in Genome fasta files for line: 211000022278604 FlyBase exon 1 265 . + . gene_id "FBgn0085752"; transcript_id "FBtr0114202"; exon_number "1"; gene_name "CR40594"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40594-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114202-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279708' not found in Genome fasta files for line: 211000022279708 FlyBase exon 608 1275 . + . gene_id "FBgn0085795"; transcript_id "FBtr0114249"; exon_number "1"; gene_name "CR41535"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41535-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114249-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279528' not found in Genome fasta files for line: 211000022279528 FlyBase exon 2 463 . + . gene_id "FBgn0085827"; transcript_id "FBtr0114285"; exon_number "1"; gene_name "CR41621"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41621-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114285-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279531' not found in Genome fasta files for line: 211000022279531 FlyBase exon 626 1200 . - . gene_id "FBgn0085822"; transcript_id "FBtr0114280"; exon_number "1"; gene_name "CR41613"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41613-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114280-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279555' not found in Genome fasta files for line: 211000022279555 FlyBase exon 51 1080 . - . gene_id "FBgn0085803"; transcript_id "FBtr0114257"; exon_number "1"; gene_name "CR41550"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41550-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114257-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278760' not found in Genome fasta files for line: 211000022278760 FlyBase exon 869 879 . - . gene_id "FBgn0085506"; transcript_id "FBtr0302344"; exon_number "1"; gene_name "CG40635"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "CG40635-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0302344-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278760' not found in Genome fasta files for line: 211000022278760 FlyBase exon 562 814 . - . gene_id "FBgn0085506"; transcript_id "FBtr0302344"; exon_number "2"; gene_name "CG40635"; gene_source "FlyBase"; gene_biotype "protein_coding"; transcript_name "CG40635-RB"; transcript_source "FlyBase"; transcript_biotype "protein_coding"; exon_id "FBtr0302344-E2"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279222' not found in Genome fasta files for line: 211000022279222 FlyBase exon 1 506 . + . gene_id "FBgn0085768"; transcript_id "FBtr0114218"; exon_number "1"; gene_name "CR40712"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40712-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114218-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278750' not found in Genome fasta files for line: 211000022278750 FlyBase exon 1 1134 . + . gene_id "FBgn0085757"; transcript_id "FBtr0114207"; exon_number "1"; gene_name "CR40621"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40621-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114207-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278877' not found in Genome fasta files for line: 211000022278877 FlyBase exon 1 549 . + . gene_id "FBgn0085758"; transcript_id "FBtr0114208"; exon_number "1"; gene_name "CR40639"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40639-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114208-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279055' not found in Genome fasta files for line: 211000022279055 FlyBase exon 384 1123 . + . gene_id "FBgn0085764"; transcript_id "FBtr0114214"; exon_number "1"; gene_name "CR40668"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40668-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114214-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279165' not found in Genome fasta files for line: 211000022279165 FlyBase exon 14 1118 . - . gene_id "FBgn0259870"; transcript_id "FBtr0300167"; exon_number "1"; gene_name "Su(Ste):CR42439"; gene_source "FlyBase"; gene_biotype "lincRNA"; transcript_name "Su(Ste):CR42439-RA"; transcript_source "FlyBase"; transcript_biotype "lincRNA"; exon_id "FBtr0300167-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279108' not found in Genome fasta files for line: 211000022279108 FlyBase exon 1 566 . + . gene_id "FBgn0085761"; transcript_id "FBtr0114211"; exon_number "1"; gene_name "CR40642"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40642-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114211-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278309' not found in Genome fasta files for line: 211000022278309 FlyBase exon 1 1110 . + . gene_id "FBgn0085748"; transcript_id "FBtr0114198"; exon_number "1"; gene_name "CR40573"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40573-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114198-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278603' not found in Genome fasta files for line: 211000022278603 FlyBase exon 1 834 . - . gene_id "FBgn0085756"; transcript_id "FBtr0114206"; exon_number "1"; gene_name "CR40613"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40613-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114206-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278880' not found in Genome fasta files for line: 211000022278880 FlyBase exon 1 540 . + . gene_id "FBgn0085799"; transcript_id "FBtr0114253"; exon_number "1"; gene_name "CR41544"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41544-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114253-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278878' not found in Genome fasta files for line: 211000022278878 FlyBase exon 1 569 . + . gene_id "FBgn0085759"; transcript_id "FBtr0114209"; exon_number "1"; gene_name "CR40640"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40640-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114209-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278985' not found in Genome fasta files for line: 211000022278985 FlyBase exon 497 1020 . - . gene_id "FBgn0085826"; transcript_id "FBtr0114284"; exon_number "1"; gene_name "CR41620"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41620-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114284-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022278158' not found in Genome fasta files for line: 211000022278158 FlyBase exon 592 1036 . + . gene_id "FBgn0085737"; transcript_id "FBtr0114187"; exon_number "1"; gene_name "CR40502"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40502-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114187-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279264' not found in Genome fasta files for line: 211000022279264 FlyBase exon 180 614 . - . gene_id "FBgn0085511"; transcript_id "FBtr0304147"; exon_number "1"; gene_name "CR40719"; gene_source "FlyBase"; gene_biotype "lincRNA"; transcript_name "CR40719-RB"; transcript_source "FlyBase"; transcript_biotype "lincRNA"; exon_id "FBtr0304147-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279134' not found in Genome fasta files for line: 211000022279134 FlyBase exon 1 1012 . + . gene_id "FBgn0085766"; transcript_id "FBtr0114216"; exon_number "1"; gene_name "CR40679"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40679-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114216-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279342' not found in Genome fasta files for line: 211000022279342 FlyBase exon 1 530 . + . gene_id "FBgn0085772"; transcript_id "FBtr0114222"; exon_number "1"; gene_name "CR40743"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR40743-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114222-E1"; WARNING: while processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: chromosome '211000022279132' not found in Genome fasta files for line: 211000022279132 FlyBase exon 1 1005 . + . gene_id "FBgn0085825"; transcript_id "FBtr0114283"; exon_number "1"; gene_name "CR41619"; gene_source "FlyBase"; gene_biotype "rRNA"; transcript_name "CR41619-RA"; transcript_source "FlyBase"; transcript_biotype "rRNA"; exon_id "FBtr0114283-E1"; Processing sjdbGTFfile=/oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf, found: 34670 transcripts 186324 exons (non-collapsed) 60150 collapsed junctions Aug 01 01:45:20 ..... finished GTF processing Aug 01 01:45:20 Loaded database junctions from the GTF file: /oak/stanford/groups/akundaje/marinovg/genomes/dm6/Drosophila_melanogaster.BDGP6.90.fixed.gtf: 120300 total junctions Aug 01 01:45:20 Finished preparing junctions Aug 01 01:45:20 ..... inserting junctions into the genome indices Aug 01 01:45:21 Finished SA search: number of new junctions=0, old junctions=60150 Aug 01 01:45:21 Finished sorting SA indicesL nInd=0 Aug 01 01:45:24 Finished inserting junction indices Aug 01 01:45:27 Finished SAi Aug 01 01:45:27 ..... finished inserting junctions into genome Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread0 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread1 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread2 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread3 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread4 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread5 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread6 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread7 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread8 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread9 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread10 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread11 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread12 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread13 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread14 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread15 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread16 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread17 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread18 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread19 ... ok Created thread # 1 Created thread # 2 Created thread # 3 Starting to map file # 0 mate 1: Dmel2_22.end1.fastq.gz Created thread # 4 Created thread # 5 Created thread # 6 Created thread # 7 Created thread # 8 Created thread # 9 Created thread # 10 Created thread # 11 Created thread # 12 Created thread # 13 Created thread # 14 Created thread # 15 Created thread # 16 Created thread # 17 Created thread # 18 Created thread # 19 Thread #10 end of input stream, nextChar=-1 Completed: thread #11 Completed: thread #12 Completed: thread #13 Completed: thread #14 Completed: thread #15 Completed: thread #16 Completed: thread #17 Completed: thread #18 Completed: thread #0 Completed: thread #19 Completed: thread #1 Joined thread # 1 Completed: thread #10 Completed: thread #4 Completed: thread #9 Completed: thread #5 Completed: thread #6 Completed: thread #2 Joined thread # 2 Completed: thread #8 Completed: thread #7 Completed: thread #3 Joined thread # 3 Joined thread # 4 Joined thread # 5 Joined thread # 6 Joined thread # 7 Joined thread # 8 Joined thread # 9 Joined thread # 10 Joined thread # 11 Joined thread # 12 Joined thread # 13 Joined thread # 14 Joined thread # 15 Joined thread # 16 Joined thread # 17 Joined thread # 18 Joined thread # 19 Aug 01 01:45:45 Loaded database junctions from the 1st pass file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARpass1//SJ.out.tab: 128922 total junctions Aug 01 01:45:46 Finished preparing junctions Aug 01 01:45:46 ..... inserting junctions into the genome indices Aug 01 01:45:46 Finished SA search: number of new junctions=3538, old junctions=60150 Aug 01 01:45:47 Finished sorting SA indicesL nInd=1400642 Aug 01 01:45:50 Finished inserting junction indices Aug 01 01:45:56 Finished SAi Aug 01 01:45:56 ..... finished inserting junctions into genome Input read files for mate 1, from input string Dmel2_22.end1.fastq.gz -rw-rw----+ 1 marinovg oak_akundaje 106320026 Dec 21 2017 Dmel2_22.end1.fastq.gz readsCommandsFile: exec > "Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp/tmp.fifo.read1" echo FILE 0 zcat "Dmel2_22.end1.fastq.gz" Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread0 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread1 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread2 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread3 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread4 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread5 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread6 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread7 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread8 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread9 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread10 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread11 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread12 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread13 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread14 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread15 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread16 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread17 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread18 ... ok Opening the file: Dmel2_22-STAR-2.5.3a/STAR-2.5.3a-_STARtmp//FilterBySJoutFiles.mate1.thread19 ... ok Created thread # 1 Created thread # 2 Created thread # 3 Starting to map file # 0 mate 1: Dmel2_22.end1.fastq.gz Created thread # 4 Created thread # 5 Created thread # 6 Created thread # 7 Created thread # 8 Created thread # 9 Created thread # 10 Created thread # 11 Created thread # 12 Created thread # 13 Created thread # 14 Created thread # 15 Created thread # 16 Created thread # 17 Created thread # 18 Created thread # 19 Thread #10 end of input stream, nextChar=-1 Completed: thread #11 Completed: thread #12 Completed: thread #13 Completed: thread #14 Completed: thread #15 Completed: thread #16 Completed: thread #17 Completed: thread #18 Completed: thread #0 Completed: thread #19 Completed: thread #10 Completed: thread #1 Joined thread # 1 Completed: thread #3 Completed: thread #9 Completed: thread #4 Completed: thread #5 Completed: thread #6 Completed: thread #2 Joined thread # 2 Joined thread # 3 Joined thread # 4 Joined thread # 5 Joined thread # 6 Completed: thread #8 Completed: thread #7 Joined thread # 7 Joined thread # 8 Joined thread # 9 Joined thread # 10 Joined thread # 11 Joined thread # 12 Joined thread # 13 Joined thread # 14 Joined thread # 15 Joined thread # 16 Joined thread # 17 Joined thread # 18 Joined thread # 19 Completed stage 1 mapping of outFilterBySJout mapping Detected 91 novel junctions that passed filtering, will proceed to filter reads that contained unannotated junctions Created thread # 1 Created thread # 2 Created thread # 3 Created thread # 4 Created thread # 5 Created thread # 6 Created thread # 7 Created thread # 8 Created thread # 9 Created thread # 10 Created thread # 11 Created thread # 12 Created thread # 13 Created thread # 14 Created thread # 15 Created thread # 16 Completed: thread #12 Created thread # 17 Completed: thread #13 Created thread # 18 Created thread # 19 Completed: thread #11 Completed: thread #0 Completed: thread #18 Completed: thread #15 Completed: thread #17 Completed: thread #19 Completed: thread #16 Completed: thread #14 BAM sorting: 89930 mapped reads BAM sorting bins genomic start loci: 1 0 16719936 2 1 4619038 3 1 16731293 4 1 17572514 5 2 6130895 6 2 16271287 7 3 9260680 8 3 30173790 9 294 991 10 1222 38461 11 1222 49388 12 1222 69021 13 1223 7011382 14 1223 23212550 15 1223 23432183 16 1223 23536406 Completed: thread #10 Completed: thread #9 Completed: thread #1 Joined thread # 1 Completed: thread #8 Completed: thread #4 Completed: thread #6 Completed: thread #5 Completed: thread #3 Completed: thread #7 Completed: thread #2 Joined thread # 2 Joined thread # 3 Joined thread # 4 Joined thread # 5 Joined thread # 6 Joined thread # 7 Joined thread # 8 Joined thread # 9 Joined thread # 10 Joined thread # 11 Joined thread # 12 Joined thread # 13 Joined thread # 14 Joined thread # 15 Joined thread # 16 Joined thread # 17 Joined thread # 18 Joined thread # 19 Aug 01 01:46:17 ..... started sorting BAM Max memory needed for sorting = 37754575 ALL DONE!