BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524752.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 = 1,352,829 number of mapped reads = 1,237,260 (91.46%) number of supplementary alignments = 4,055 (0.3%) number of secondary alignments = 0 number of mapped bases = 71,294,452 bp number of sequenced bases = 71,272,048 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 38,353 duplication rate = 2.34% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.6663 >>>>>>> ACTG content number of A's = 17,845,646 bp (25.04%) number of C's = 13,906,400 bp (19.51%) number of T's = 22,261,413 bp (31.23%) number of G's = 17,249,913 bp (24.2%) number of N's = 8,676 bp (0.01%) GC percentage = 43.71% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 357,695 number of insertions = 5,713 mapped reads with insertion percentage = 0.46% number of deletions = 14,005 mapped reads with deletion percentage = 1.12% homopolymer indels = 41.96% >>>>>>> Coverage mean coverageData = 0.023X std coverageData = 0.2098X There is a 2.08% of reference with a coverageData >= 1X There is a 0.16% of reference with a coverageData >= 2X There is a 0.02% 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 5794478 0.023247597044101245 0.26439627203897736 chr2 243199373 5960991 0.024510716974586937 0.3240683255292689 chr3 198022430 4693187 0.023700279811736478 0.16813782439992941 chr4 191154276 4575127 0.02393421217530075 0.18923592307355164 chr5 180915260 4268558 0.02359423964567721 0.16696038346352493 chr6 171115067 4023650 0.023514294039343714 0.17801476580933118 chr7 159138663 3853859 0.024216987420586786 0.23861765843435312 chr8 146364022 3529900 0.024117265648794482 0.19112878950333656 chr9 141213431 3079192 0.021805234659300926 0.1874400938855839 chr10 135534747 3495245 0.025788552953140496 0.25409494705341834 chr11 135006516 3161752 0.02341925481581941 0.19254624292419484 chr12 133851895 3253632 0.02430770218083203 0.17049142466519607 chr13 115169878 2176443 0.018897675657866025 0.14908834892701517 chr14 107349540 2135919 0.019896862157024613 0.15638881385563466 chr15 102531392 2051039 0.02000401008892964 0.155077399848806 chr16 90354753 2163736 0.02394711875312193 0.1817290454667339 chr17 81195210 2034069 0.02505158863435417 0.17729819678808253 chr18 78077248 1907811 0.024434916046221302 0.28738227718668247 chr19 59128983 1592518 0.026932950969239568 0.2319294556794833 chr20 63025520 1539843 0.024432055459439286 0.1763771726451383 chr21 48129895 933503 0.0193954921364362 0.16460483204788906 chr22 51304566 898712 0.01751719330400339 0.14440357972307216 chrMT 16571 25510 1.5394363647335707 1.4873200755329103 chrX 155270560 3907887 0.02516824180965149 0.18393295501528947 chrY 59373566 237891 0.00400668203085528 0.12193018548544289