BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524705.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.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 = 576,461 number of mapped reads = 536,904 (93.14%) number of supplementary alignments = 2,198 (0.38%) number of secondary alignments = 0 number of mapped bases = 32,367,971 bp number of sequenced bases = 32,357,873 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 10,102 duplication rate = 1.38% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.3067 >>>>>>> ACTG content number of A's = 8,635,239 bp (26.69%) number of C's = 6,200,921 bp (19.16%) number of T's = 9,698,146 bp (29.97%) number of G's = 7,819,076 bp (24.16%) number of N's = 4,491 bp (0.01%) GC percentage = 43.33% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 158,028 number of insertions = 2,643 mapped reads with insertion percentage = 0.49% number of deletions = 6,277 mapped reads with deletion percentage = 1.16% homopolymer indels = 41.64% >>>>>>> Coverage mean coverageData = 0.0105X std coverageData = 0.1282X There is a 0.99% of reference with a coverageData >= 1X There is a 0.04% 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 2605657 0.010453963924125991 0.18997917601494385 chr2 243199373 2745061 0.011287286501351301 0.14577819810021822 chr3 198022430 2125040 0.010731309579424917 0.10682278232634812 chr4 191154276 2083291 0.010898479718026292 0.11448257905417894 chr5 180915260 1956205 0.010812824744579314 0.10743422866215106 chr6 171115067 1875419 0.01095998752698966 0.11290095572106691 chr7 159138663 1774693 0.011151865716001397 0.1464951627009151 chr8 146364022 1635279 0.01117268422700218 0.14581407152333312 chr9 141213431 1347235 0.009540416874369408 0.11447901660932264 chr10 135534747 1574998 0.01162062153699966 0.14008533862334419 chr11 135006516 1480109 0.01096324121126124 0.12063750561044365 chr12 133851895 1468902 0.01097408445356713 0.108485863649684 chr13 115169878 1018324 0.008841930005343931 0.09731283264429252 chr14 107349540 976603 0.009097412061570082 0.10072423947998164 chr15 102531392 914383 0.008918078474931854 0.09726160577129846 chr16 90354753 945394 0.010463135237611684 0.10934476952326459 chr17 81195210 874769 0.010773652780749012 0.10985635366791634 chr18 78077248 872171 0.01117061656681342 0.17482674908369447 chr19 59128983 666318 0.011268889911399288 0.15386607992587414 chr20 63025520 680664 0.010799815693706296 0.10871045881684106 chr21 48129895 434721 0.009032244928022386 0.10380708460626797 chr22 51304566 376512 0.007338762011942563 0.0884229529943293 chrMT 16571 3793 0.22889385070303542 0.5068361125524008 chrX 155270560 1821164 0.011728971673702987 0.11615955241985837 chrY 59373566 111266 0.0018739989442439755 0.07671346662616879