BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524880.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 = 1,206,890 number of mapped reads = 1,113,508 (92.26%) number of supplementary alignments = 4,263 (0.35%) number of secondary alignments = 0 number of mapped bases = 65,366,538 bp number of sequenced bases = 65,347,303 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 35,253 duplication rate = 2.29% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.371 >>>>>>> ACTG content number of A's = 17,042,805 bp (26.08%) number of C's = 11,528,885 bp (17.64%) number of T's = 20,511,932 bp (31.39%) number of G's = 16,254,996 bp (24.87%) number of N's = 8,685 bp (0.01%) GC percentage = 42.52% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 319,251 number of insertions = 4,298 mapped reads with insertion percentage = 0.38% number of deletions = 12,235 mapped reads with deletion percentage = 1.09% homopolymer indels = 44.39% >>>>>>> Coverage mean coverageData = 0.0211X std coverageData = 0.2281X There is a 1.95% of reference with a coverageData >= 1X There is a 0.11% 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 5240589 0.02102537991269438 0.44294968134787627 chr2 243199373 5582106 0.02295279766202358 0.23920331059302 chr3 198022430 4396610 0.022202585838382045 0.15728823078849613 chr4 191154276 4257778 0.02227404005338599 0.1705844968677213 chr5 180915260 3963480 0.021907936345447035 0.15728059521581042 chr6 171115067 3741593 0.021865947082263654 0.16860172905866558 chr7 159138663 3618862 0.022740306672049897 0.30187061294370515 chr8 146364022 3351976 0.022901639038041738 0.22091756854252528 chr9 141213431 2754496 0.01950590663008535 0.1997407452995181 chr10 135534747 3120160 0.023021107642603265 0.21110775150193342 chr11 135006516 3008401 0.02228337630755541 0.20620036085976698 chr12 133851895 2948531 0.022028309722473483 0.15999642282612578 chr13 115169878 2065136 0.017931216355026442 0.1418461944761123 chr14 107349540 1999913 0.018629916811939762 0.14926959834835 chr15 102531392 1878530 0.01832151074277817 0.1426193388426068 chr16 90354753 1874761 0.020748891870691073 0.1643268861178331 chr17 81195210 1749873 0.02155143142064661 0.16504382509715557 chr18 78077248 1599772 0.020489605371336858 0.3660047639112097 chr19 59128983 1273858 0.021543715710449475 0.28043766040021717 chr20 63025520 1390343 0.022060000456957753 0.1589582791744337 chr21 48129895 874997 0.018179906687932727 0.1535595707062397 chr22 51304566 758181 0.014778041393040923 0.12907742680860665 chrMT 16571 7612 0.45935670750105606 0.707606463940764 chrX 155270560 3716914 0.02393830485315439 0.18337474028074055 chrY 59373566 192066 0.00323487391678647 0.0952206696323475