BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714250.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 389,104 number of mapped reads = 24,050 (6.18%) number of supplementary alignments = 467 (0.12%) number of secondary alignments = 0 number of mapped bases = 2,294,441 bp number of sequenced bases = 2,269,902 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 21,158 duplication rate = 37.72% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 24.9168 >>>>>>> ACTG content number of A's = 370,061 bp (16.3%) number of C's = 255,718 bp (11.27%) number of T's = 324,664 bp (14.3%) number of G's = 1,319,370 bp (58.12%) number of N's = 89 bp (0%) GC percentage = 69.39% >>>>>>> Mismatches and indels general error rate = 0.0348 number of mismatches = 66,547 number of insertions = 2,658 mapped reads with insertion percentage = 9% number of deletions = 4,381 mapped reads with deletion percentage = 17.4% homopolymer indels = 34.69% >>>>>>> Coverage mean coverageData = 0.0007X std coverageData = 1.2588X There is a 0% of reference with a coverageData >= 1X There is a 0% of reference with a coverageData >= 2X There is a 0% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 50478 2.0251905410498456E-4 0.11455666419659492 chr2 243199373 1127894 0.004637733996131643 4.456676181525916 chr3 198022430 59944 3.027131825419979E-4 0.14154139346308292 chr4 191154276 47762 2.49861007556012E-4 0.13186419680503922 chr5 180915260 51614 2.852937889263736E-4 0.09481571585763068 chr6 171115067 41405 2.4197167862488695E-4 0.09019198560881947 chr7 159138663 25208 1.5840273837163004E-4 0.14123000307484557 chr8 146364022 116362 7.950177810773743E-4 0.2395902020076534 chr9 141213431 60452 4.2808959156300083E-4 0.16774309743322494 chr10 135534747 66199 4.884282552281593E-4 0.20180528271663548 chr11 135006516 25548 1.8923531068678197E-4 0.08686511715347069 chr12 133851895 59464 4.442522087565514E-4 0.14018311848414408 chr13 115169878 59166 5.137280774057953E-4 0.2507505649666539 chr14 107349540 34563 3.2196691294625015E-4 0.1537226918045146 chr15 102531392 28855 2.814260046328055E-4 0.11405794933765434 chr16 90354753 5143 5.692008255503725E-5 0.01908330186772081 chr17 81195210 37234 4.5857384936870047E-4 0.21471946885154097 chr18 78077248 10056 1.2879552312089688E-4 0.05393491124210905 chr19 59128983 24429 4.131476436860076E-4 0.21253031262125788 chr20 63025520 36621 5.810503427817811E-4 0.23262352929029023 chr21 48129895 718 1.4917963149514455E-5 0.0044333870914484265 chr22 51304566 564 1.0993173590046547E-5 0.003493067731577025 chrMT 16571 0 0.0 0.0 chrX 155270560 323287 0.002082088194954665 0.3159716592368217 chrY 59373566 1475 2.4842705253715095E-5 0.012273500779014197