BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524295.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 = 1,940,775 number of mapped reads = 1,771,478 (91.28%) number of supplementary alignments = 7,647 (0.39%) number of secondary alignments = 0 number of mapped bases = 102,598,447 bp number of sequenced bases = 102,570,304 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 59,801 duplication rate = 2.36% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.0905 >>>>>>> ACTG content number of A's = 24,161,879 bp (23.56%) number of C's = 18,390,000 bp (17.93%) number of T's = 33,788,946 bp (32.94%) number of G's = 26,216,013 bp (25.56%) number of N's = 13,466 bp (0.01%) GC percentage = 43.49% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 525,181 number of insertions = 6,962 mapped reads with insertion percentage = 0.39% number of deletions = 17,769 mapped reads with deletion percentage = 1% homopolymer indels = 42.24% >>>>>>> Coverage mean coverageData = 0.0331X std coverageData = 0.3068X There is a 2.98% 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 0.01% 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 8609134 0.034540070413706214 0.5875302266507207 chr2 243199373 6806987 0.02798932791656498 0.39390476058773605 chr3 198022430 7224552 0.036483503409184506 0.2087879774641364 chr4 191154276 5403147 0.028265896599665916 0.20293292853836678 chr5 180915260 5769116 0.03188849851582448 0.19475640719115414 chr6 171115067 6607226 0.038612765759545885 0.2345419197439663 chr7 159138663 4701156 0.029541256105689414 0.387599303868476 chr8 146364022 10605872 0.07246228858072785 0.3783316403754648 chr9 141213431 4206626 0.029789135284164294 0.23463877772256725 chr10 135534747 5007951 0.03694957279110131 0.2918605260067389 chr11 135006516 4987438 0.03694220210823009 0.25882832559738345 chr12 133851895 4086017 0.03052640382864957 0.19388967826991546 chr13 115169878 2542875 0.02207934091933309 0.1626097965216603 chr14 107349540 2186214 0.020365378370508155 0.16397617704538558 chr15 102531392 3172131 0.030938144290482274 0.19994988649307888 chr16 90354753 3276060 0.03625774949548033 0.21986324694214282 chr17 81195210 3212373 0.039563577703660105 0.2349213696590682 chr18 78077248 2427686 0.031093385873436522 0.408878329929838 chr19 59128983 1794716 0.030352559928182764 0.40912323597111394 chr20 63025520 2372942 0.037650494593301255 0.2141883249329042 chr21 48129895 1496003 0.031082615077385894 0.20621403298806976 chr22 51304566 753589 0.014688536688917708 0.13186251080161507 chrMT 16571 7112 0.429183513366725 0.7704192130656605 chrX 155270560 5051305 0.03253227785099764 0.21785356455047938 chrY 59373566 290219 0.004888017000696909 0.14001459536856206