BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524444.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 = 719,502 number of mapped reads = 659,178 (91.62%) number of supplementary alignments = 2,347 (0.33%) number of secondary alignments = 0 number of mapped bases = 38,394,100 bp number of sequenced bases = 38,381,287 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 16,911 duplication rate = 1.94% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7714 >>>>>>> ACTG content number of A's = 9,645,468 bp (25.13%) number of C's = 7,001,614 bp (18.24%) number of T's = 12,510,323 bp (32.59%) number of G's = 9,223,024 bp (24.03%) number of N's = 858 bp (0%) GC percentage = 42.27% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 195,188 number of insertions = 2,645 mapped reads with insertion percentage = 0.4% number of deletions = 7,948 mapped reads with deletion percentage = 1.2% homopolymer indels = 44.35% >>>>>>> Coverage mean coverageData = 0.0124X std coverageData = 0.1483X There is a 1.17% of reference with a coverageData >= 1X There is a 0.05% of reference with a coverageData >= 2X There is a 0.01% 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 3093166 0.012409862762187461 0.23031311989125258 chr2 243199373 3258648 0.013399080597136244 0.18517786261553582 chr3 198022430 2550490 0.012879803565686979 0.11861913850663594 chr4 191154276 2479311 0.012970209465782498 0.12408810030458284 chr5 180915260 2325785 0.012855659605497071 0.11839044899641038 chr6 171115067 2218018 0.012962143187542918 0.12589019421439274 chr7 159138663 2132845 0.013402431312370646 0.19459307446624313 chr8 146364022 1957608 0.013374926250660151 0.16307107756890232 chr9 141213431 1618078 0.011458385994459691 0.1282071817340526 chr10 135534747 1842596 0.013595008223241823 0.14857977337095662 chr11 135006516 1761353 0.013046429551592902 0.13371785363359906 chr12 133851895 1730823 0.012930881553824845 0.11955586527180803 chr13 115169878 1216178 0.010559861841652729 0.10768321192597624 chr14 107349540 1161411 0.010818965782247414 0.11006070811587755 chr15 102531392 1094635 0.01067609615599484 0.1094261136535298 chr16 90354753 1117111 0.01236361079975505 0.12179464523218471 chr17 81195210 1000130 0.012317598538140366 0.11867829153133837 chr18 78077248 1038211 0.013297228406411045 0.19388639903617436 chr19 59128983 761669 0.012881483180591825 0.1776965936532433 chr20 63025520 796076 0.012631010422444749 0.11810784396268771 chr21 48129895 510686 0.010610577895505485 0.11184844616793518 chr22 51304566 435092 0.008480570715674702 0.09618634769112432 chrMT 16571 8000 0.48277110614929697 0.7123894841267203 chrX 155270560 2166076 0.013950332889892328 0.1285729745726976 chrY 59373566 120104 0.002022853065621829 0.07175874845284004