BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524691.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 = 1,698,597 number of mapped reads = 1,573,557 (92.64%) number of supplementary alignments = 7,004 (0.41%) number of secondary alignments = 0 number of mapped bases = 92,974,329 bp number of sequenced bases = 92,946,331 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 65,606 duplication rate = 3.1% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7862 >>>>>>> ACTG content number of A's = 22,584,760 bp (24.3%) number of C's = 16,696,262 bp (17.96%) number of T's = 30,423,041 bp (32.73%) number of G's = 23,229,370 bp (24.99%) number of N's = 12,898 bp (0.01%) GC percentage = 42.96% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 463,945 number of insertions = 5,644 mapped reads with insertion percentage = 0.36% number of deletions = 17,543 mapped reads with deletion percentage = 1.11% homopolymer indels = 45.39% >>>>>>> Coverage mean coverageData = 0.03X std coverageData = 0.2824X There is a 2.69% of reference with a coverageData >= 1X There is a 0.23% of reference with a coverageData >= 2X There is a 0.03% of reference with a coverageData >= 3X There is a 0.01% 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 7510670 0.030133004162103974 0.4840829425914811 chr2 243199373 7897407 0.03247297434438698 0.3879493938295981 chr3 198022430 6161726 0.031116303339980222 0.19345555499921943 chr4 191154276 5974816 0.031256512409902876 0.2240708339543823 chr5 180915260 5616582 0.031045374502957905 0.19322691984380064 chr6 171115067 5314980 0.03106085333794715 0.21552315833250682 chr7 159138663 5182285 0.03256458802849186 0.3281241283976001 chr8 146364022 4704335 0.03214133456922904 0.30113248146406335 chr9 141213431 3925932 0.027801406510688065 0.23871666446254142 chr10 135534747 4493938 0.03315709144312639 0.30411475034362156 chr11 135006516 4212798 0.031204404978497483 0.2504804656134262 chr12 133851895 4109616 0.030702710634018294 0.1930027697925779 chr13 115169878 2852437 0.02476721387166877 0.17269215833108123 chr14 107349540 2812965 0.026203791837393995 0.18125063616196385 chr15 102531392 2614883 0.025503242948267005 0.1758004123866132 chr16 90354753 2705136 0.0299390558900648 0.20136783062135913 chr17 81195210 2537910 0.03125689310982754 0.20342007194552422 chr18 78077248 2519736 0.0322723464843433 0.4354910031774555 chr19 59128983 1973595 0.03337779376317025 0.3760273579401283 chr20 63025520 1994302 0.0316427694686216 0.19957353279406845 chr21 48129895 1229134 0.0255378491891578 0.20118064017303933 chr22 51304566 1131859 0.022061564656837757 0.16244140162945878 chrMT 16571 14392 0.8685052199625852 1.1750737746036088 chrX 155270560 5170749 0.033301541515661434 0.2174912291839538 chrY 59373566 312146 0.005257322762119426 0.1893273610485111