BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524903.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 = 725,830 number of mapped reads = 674,681 (92.95%) number of supplementary alignments = 2,665 (0.37%) number of secondary alignments = 0 number of mapped bases = 39,756,410 bp number of sequenced bases = 39,743,363 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 22,771 duplication rate = 2.71% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.3374 >>>>>>> ACTG content number of A's = 10,250,920 bp (25.79%) number of C's = 7,195,944 bp (18.11%) number of T's = 12,375,602 bp (31.14%) number of G's = 9,920,615 bp (24.96%) number of N's = 282 bp (0%) GC percentage = 43.07% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 195,113 number of insertions = 2,409 mapped reads with insertion percentage = 0.36% number of deletions = 7,628 mapped reads with deletion percentage = 1.12% homopolymer indels = 44.15% >>>>>>> Coverage mean coverageData = 0.0128X std coverageData = 0.1484X There is a 1.18% of reference with a coverageData >= 1X There is a 0.08% 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 4138812 0.016605021818581547 0.23681552824152913 chr2 243199373 3541193 0.01456086401999071 0.1728792166620516 chr3 198022430 2594174 0.013100404837977192 0.12176942647722509 chr4 191154276 1767451 0.009246201743349962 0.1228504559511983 chr5 180915260 2469634 0.01365077771770054 0.1243189514710008 chr6 171115067 2464906 0.014404961779315436 0.1308562035701611 chr7 159138663 2411157 0.015151296074417817 0.17315099332580464 chr8 146364022 3490684 0.023849330951017458 0.19916126849896165 chr9 141213431 1459471 0.010335213794217634 0.12191273151990079 chr10 135534747 1714950 0.01265321283257348 0.16591577918631856 chr11 135006516 2045504 0.015151150185965839 0.14097562343652287 chr12 133851895 1230927 0.00919618657621545 0.10290710291284855 chr13 115169878 955933 0.008300199814399386 0.09729379973482949 chr14 107349540 727394 0.0067759396081250095 0.08859609558572919 chr15 102531392 1024884 0.009995806942716626 0.10667278722849528 chr16 90354753 1165963 0.012904279645366305 0.12419840877004132 chr17 81195210 907865 0.01118126303263456 0.11585951129975539 chr18 78077248 1034741 0.013252785241610976 0.17846910819331677 chr19 59128983 820579 0.013877779700692637 0.17495007875138036 chr20 63025520 763197 0.01210933285437391 0.11940761966254851 chr21 48129895 357714 0.007432262214575785 0.10617663542900052 chr22 51304566 769351 0.014995760806162944 0.13055647403847656 chrMT 16571 7827 0.47233118097881843 0.7188112612227799 chrX 155270560 1766240 0.011375240741065145 0.11713176140954405 chrY 59373566 125859 0.002119781722391409 0.0892366716326064