BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524630.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 = 780,146 number of mapped reads = 724,884 (92.92%) number of supplementary alignments = 1,623 (0.21%) number of secondary alignments = 0 number of mapped bases = 42,010,302 bp number of sequenced bases = 41,997,055 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 18,958 duplication rate = 2.01% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.143 >>>>>>> ACTG content number of A's = 9,986,404 bp (23.78%) number of C's = 7,342,594 bp (17.48%) number of T's = 13,936,724 bp (33.19%) number of G's = 10,731,051 bp (25.55%) number of N's = 282 bp (0%) GC percentage = 43.04% >>>>>>> Mismatches and indels general error rate = 0.0047 number of mismatches = 193,014 number of insertions = 2,611 mapped reads with insertion percentage = 0.36% number of deletions = 7,671 mapped reads with deletion percentage = 1.05% homopolymer indels = 43.94% >>>>>>> Coverage mean coverageData = 0.0136X std coverageData = 0.1495X There is a 1.27% of reference with a coverageData >= 1X There is a 0.07% 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 4270389 0.017132912178381293 0.2333394873559551 chr2 243199373 3729109 0.015333546933116476 0.1679934964536691 chr3 198022430 3036010 0.015331647026046493 0.13110925766788334 chr4 191154276 1884556 0.009858822096137677 0.11372484135797385 chr5 180915260 2585681 0.01429222167328505 0.12620953457987874 chr6 171115067 2567110 0.015002244074742991 0.1336171671542738 chr7 159138663 2577054 0.01619376430226764 0.1872021666274325 chr8 146364022 3707430 0.025330200341174006 0.19946573315276367 chr9 141213431 1518357 0.010752213789069398 0.12827799614217938 chr10 135534747 1806312 0.013327298275769828 0.14917142585293944 chr11 135006516 2117376 0.015683509675932975 0.15186070654301595 chr12 133851895 1398346 0.010446964534943641 0.10875308074916229 chr13 115169878 1024124 0.008892290395584165 0.10001873754793837 chr14 107349540 771977 0.00719124646458662 0.09089814688315505 chr15 102531392 1093408 0.010664129089362212 0.1105638453915039 chr16 90354753 1235164 0.013670160771730513 0.12709839280043825 chr17 81195210 949133 0.011689519615750732 0.11581156583654709 chr18 78077248 1126718 0.014430810881039249 0.19961425851483872 chr19 59128983 893509 0.015111184983513076 0.17561362573664588 chr20 63025520 801691 0.012720101317688455 0.1199525854143469 chr21 48129895 377610 0.00784564354441247 0.10051344109594158 chr22 51304566 514167 0.010021856534172806 0.10566360245140695 chrMT 16571 9334 0.5632731880996922 0.8504918781933302 chrX 155270560 1915756 0.012338179240159886 0.12591786918426984 chrY 59373566 99981 0.0016839311959130094 0.058622460457803206