BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524814.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 = 1,076,017 number of mapped reads = 987,090 (91.74%) number of supplementary alignments = 3,976 (0.37%) number of secondary alignments = 0 number of mapped bases = 56,863,714 bp number of sequenced bases = 56,844,775 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 26,652 duplication rate = 2.03% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.6238 >>>>>>> ACTG content number of A's = 13,756,215 bp (24.2%) number of C's = 10,610,481 bp (18.67%) number of T's = 18,327,309 bp (32.24%) number of G's = 14,143,286 bp (24.88%) number of N's = 7,484 bp (0.01%) GC percentage = 43.55% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 288,210 number of insertions = 4,068 mapped reads with insertion percentage = 0.41% number of deletions = 11,806 mapped reads with deletion percentage = 1.19% homopolymer indels = 42.23% >>>>>>> Coverage mean coverageData = 0.0184X std coverageData = 0.1807X There is a 1.69% of reference with a coverageData >= 1X There is a 0.1% 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 4530899 0.018178085100939427 0.2368458051568988 chr2 243199373 4773127 0.019626395171668472 0.2709063079206218 chr3 198022430 3733235 0.01885258654789763 0.14739295128466975 chr4 191154276 3651493 0.0191023349119326 0.16356650556198182 chr5 180915260 3352936 0.018533185094502254 0.14485363355859968 chr6 171115067 3220616 0.018821346690645308 0.1558016512816154 chr7 159138663 3140799 0.019736240966156667 0.21521733020334427 chr8 146364022 2802478 0.01914731476837935 0.16654444183503875 chr9 141213431 2402580 0.01701382073210869 0.15836215473135468 chr10 135534747 2819769 0.02080476824146062 0.209605029815016 chr11 135006516 2558279 0.018949300195258725 0.1632034453754295 chr12 133851895 2585102 0.01931315204764191 0.1489651933617261 chr13 115169878 1724569 0.014974132385553104 0.12947692177207076 chr14 107349540 1739707 0.0162060033047184 0.13731679058245114 chr15 102531392 1659955 0.0161897246064893 0.13724162091583658 chr16 90354753 1723322 0.019072842797766266 0.15885197360602257 chr17 81195210 1630636 0.020082908831690935 0.15473581105804562 chr18 78077248 1467757 0.01879877989552091 0.22906455775933138 chr19 59128983 1279662 0.021641874002805022 0.2017111682338941 chr20 63025520 1231534 0.019540243380776548 0.15266186681949265 chr21 48129895 751211 0.015607991665055575 0.1417871759116338 chr22 51304566 724936 0.014130048385946779 0.1269279594973033 chrMT 16571 16537 0.9979482227988655 1.1215676640124723 chrX 155270560 3153069 0.020306933909428806 0.15766929236104918 chrY 59373566 189506 0.0031917570859732428 0.09744511235096945