BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524871.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 = 735,017 number of mapped reads = 676,397 (92.02%) number of supplementary alignments = 3,218 (0.44%) number of secondary alignments = 0 number of mapped bases = 39,355,833 bp number of sequenced bases = 39,344,110 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,532 duplication rate = 1.38% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1056 >>>>>>> ACTG content number of A's = 10,013,945 bp (25.45%) number of C's = 7,114,535 bp (18.08%) number of T's = 12,818,550 bp (32.58%) number of G's = 9,391,604 bp (23.87%) number of N's = 5,476 bp (0.01%) GC percentage = 41.95% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 188,862 number of insertions = 2,436 mapped reads with insertion percentage = 0.36% number of deletions = 7,410 mapped reads with deletion percentage = 1.09% homopolymer indels = 44.25% >>>>>>> Coverage mean coverageData = 0.0127X std coverageData = 0.1534X There is a 1.2% of reference with a coverageData >= 1X There is a 0.04% 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 3277574 0.01314971247353482 0.27017611688044646 chr2 243199373 2593063 0.010662293113724434 0.14614081686463232 chr3 198022430 2852844 0.014406671001865799 0.12387333472241077 chr4 191154276 2160177 0.011300699336697025 0.11349073491191913 chr5 180915260 2369797 0.013098933721787758 0.11832851420878178 chr6 171115067 2589518 0.015133196891422776 0.1351871821356856 chr7 159138663 1791482 0.011257364905723759 0.18311841675130536 chr8 146364022 4278155 0.029229553421263595 0.21896388441642783 chr9 141213431 1612526 0.011419069620934287 0.1333357376286505 chr10 135534747 1945735 0.014355986513185435 0.14809519667821408 chr11 135006516 1885329 0.013964725969226552 0.1431108990017092 chr12 133851895 1553588 0.011606768809660857 0.11217143359983674 chr13 115169878 1048026 0.009099827300329344 0.09848465184606364 chr14 107349540 822406 0.0076610109367958165 0.09274525751557552 chr15 102531392 1171991 0.011430557774930043 0.11144637603278412 chr16 90354753 1114165 0.012331005984820743 0.11931633944772402 chr17 81195210 1055930 0.013004831196323034 0.12557578309563516 chr18 78077248 960702 0.012304506429324968 0.2139801095655921 chr19 59128983 564563 0.009547991041888882 0.18765576453591729 chr20 63025520 829462 0.013160732350958786 0.11961546826071039 chr21 48129895 513709 0.010673387091328581 0.1108908183394456 chr22 51304566 241667 0.004710438443237197 0.07034552674071652 chrMT 16571 3026 0.1826081709009716 0.4449969758798953 chrX 155270560 2027062 0.013055031166242976 0.1266964282558958 chrY 59373566 93336 0.0015720127034310185 0.04939191907847594