BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525257.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 = 711,884 number of mapped reads = 645,444 (90.67%) number of supplementary alignments = 2,160 (0.3%) number of secondary alignments = 0 number of mapped bases = 37,334,402 bp number of sequenced bases = 37,322,548 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 14,202 duplication rate = 1.63% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.935 >>>>>>> ACTG content number of A's = 9,266,769 bp (24.83%) number of C's = 6,771,496 bp (18.14%) number of T's = 12,235,718 bp (32.78%) number of G's = 9,047,872 bp (24.24%) number of N's = 693 bp (0%) GC percentage = 42.39% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 187,778 number of insertions = 2,138 mapped reads with insertion percentage = 0.33% number of deletions = 7,439 mapped reads with deletion percentage = 1.15% homopolymer indels = 43.26% >>>>>>> Coverage mean coverageData = 0.0121X std coverageData = 0.1434X There is a 1.14% 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 4058898 0.016284404763830057 0.2230703023465731 chr2 243199373 3159410 0.012991028558284975 0.16938254808778594 chr3 198022430 2861828 0.014452039599756453 0.1256290282540595 chr4 191154276 1649620 0.00862978341117517 0.09877787015156493 chr5 180915260 1742541 0.009631807731420777 0.10175862123727004 chr6 171115067 2385448 0.013940607579576847 0.12998150725819335 chr7 159138663 2838828 0.017838707115441832 0.22951590893727222 chr8 146364022 1891335 0.012922130549268454 0.1336830467068577 chr9 141213431 1266759 0.008970527739673714 0.11580256121738938 chr10 135534747 2052295 0.015142205562976407 0.16580021530329814 chr11 135006516 1745482 0.012928872262728415 0.1326868994548499 chr12 133851895 1712437 0.012793520779067043 0.1180029061183271 chr13 115169878 864604 0.007507206007459693 0.0907888070426807 chr14 107349540 1438720 0.013402199953534966 0.12173933226321325 chr15 102531392 728217 0.00710238089813508 0.08925415612846736 chr16 90354753 1000482 0.01107282092841314 0.11595728445530687 chr17 81195210 665452 0.008195705140734286 0.09595606041432553 chr18 78077248 818779 0.01048678098900207 0.17729664780987003 chr19 59128983 620347 0.010491420087505986 0.1578342071150969 chr20 63025520 650523 0.010321580845346456 0.1065517659326593 chr21 48129895 484587 0.01006831616815287 0.10563877939998674 chr22 51304566 418881 0.008164594940731006 0.09331639972484307 chrMT 16571 626 0.03777683905618249 0.19065610267470007 chrX 155270560 2176828 0.014019579758068754 0.12791364416902107 chrY 59373566 101475 0.0017090939088954165 0.05631047006072748