BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524772.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 = 1,137,709 number of mapped reads = 1,040,519 (91.46%) number of supplementary alignments = 3,958 (0.35%) number of secondary alignments = 0 number of mapped bases = 59,870,413 bp number of sequenced bases = 59,851,388 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 29,992 duplication rate = 2.17% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8348 >>>>>>> ACTG content number of A's = 14,056,706 bp (23.49%) number of C's = 11,171,368 bp (18.67%) number of T's = 19,244,145 bp (32.15%) number of G's = 15,371,829 bp (25.68%) number of N's = 7,340 bp (0.01%) GC percentage = 44.35% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 302,887 number of insertions = 3,696 mapped reads with insertion percentage = 0.35% number of deletions = 11,638 mapped reads with deletion percentage = 1.11% homopolymer indels = 42.73% >>>>>>> Coverage mean coverageData = 0.0193X std coverageData = 0.1872X There is a 1.77% of reference with a coverageData >= 1X There is a 0.12% of reference with a coverageData >= 2X There is a 0.01% 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 4815591 0.01932027683894918 0.24640819335943004 chr2 243199373 5038446 0.020717347819807084 0.26493522624541344 chr3 198022430 3936574 0.01987943487008012 0.15486850828046939 chr4 191154276 3859501 0.020190503088719815 0.16923171250044522 chr5 180915260 3640191 0.020120972658691148 0.15162660218604412 chr6 171115067 3363388 0.019655709219340692 0.1568134182407521 chr7 159138663 3318754 0.020854479593057786 0.22470872717526283 chr8 146364022 2961928 0.02023672183591675 0.17876294309099716 chr9 141213431 2577391 0.01825174122424658 0.1667663183022779 chr10 135534747 2961805 0.021852735667850547 0.2354430283555829 chr11 135006516 2696005 0.01996944354893211 0.17517541690361163 chr12 133851895 2725886 0.020364941415285904 0.15433792115047892 chr13 115169878 1810809 0.015722939291469944 0.13391342852021443 chr14 107349540 1767835 0.01646802585274236 0.14038423433650327 chr15 102531392 1699608 0.016576464698733438 0.13754750012618966 chr16 90354753 1838730 0.020350119268213816 0.1680798861925094 chr17 81195210 1711392 0.0210774995224472 0.16071523690518125 chr18 78077248 1537819 0.019696121973971213 0.24158525933841588 chr19 59128983 1336481 0.022602807154657133 0.2109354758001233 chr20 63025520 1274127 0.020216048990948428 0.1589234288401441 chr21 48129895 777517 0.01615455425365046 0.14716453341924232 chr22 51304566 757879 0.01477215497739519 0.13079910355771254 chrMT 16571 14488 0.8742984732363768 1.110340448247761 chrX 155270560 3250085 0.020931752935005838 0.16230978434649293 chrY 59373566 198183 0.003337899562913233 0.0978109160828853