BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525035.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 = 667,613 number of mapped reads = 609,613 (91.31%) number of supplementary alignments = 2,569 (0.38%) number of secondary alignments = 0 number of mapped bases = 35,047,948 bp number of sequenced bases = 35,035,790 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 23,419 duplication rate = 3.09% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.393 >>>>>>> ACTG content number of A's = 8,283,982 bp (23.64%) number of C's = 6,794,146 bp (19.39%) number of T's = 10,987,255 bp (31.36%) number of G's = 8,970,061 bp (25.6%) number of N's = 346 bp (0%) GC percentage = 44.99% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 182,041 number of insertions = 1,949 mapped reads with insertion percentage = 0.32% number of deletions = 7,233 mapped reads with deletion percentage = 1.18% homopolymer indels = 44.31% >>>>>>> Coverage mean coverageData = 0.0113X std coverageData = 0.1387X There is a 1.03% of reference with a coverageData >= 1X There is a 0.08% 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 2588441 0.0103848928825738 0.20902605281440237 chr2 243199373 3026680 0.012445262348599887 0.15747302552023748 chr3 198022430 2167275 0.010944593498827381 0.1130656590616113 chr4 191154276 2212433 0.011574070150541649 0.127977290584032 chr5 180915260 2188663 0.012097724647439911 0.11900968108918503 chr6 171115067 2162530 0.012637870164875662 0.13149001722031362 chr7 159138663 2079360 0.013066340767233918 0.15073345654438938 chr8 146364022 1784618 0.012193010110093858 0.15029681671024095 chr9 141213431 1565706 0.011087514756298216 0.12467947014486554 chr10 135534747 1663217 0.012271517354881696 0.1492075734982214 chr11 135006516 1748078 0.012948100964252718 0.13774517864530447 chr12 133851895 1530602 0.011435041692909913 0.11642908909360442 chr13 115169878 1011961 0.008786681184120035 0.1013035110206862 chr14 107349540 1087315 0.010128734599142203 0.1100555624398557 chr15 102531392 897897 0.008757288694568781 0.10329076557046168 chr16 90354753 1059507 0.011726079313171272 0.1203299471360687 chr17 81195210 1008439 0.012419932161022799 0.12615621244797942 chr18 78077248 957990 0.012269771598507161 0.1766062773603857 chr19 59128983 735826 0.012444421714474609 0.16007782207895063 chr20 63025520 784754 0.012451368905801967 0.12195899831234695 chr21 48129895 515332 0.010707108336720868 0.1225434783583611 chr22 51304566 402905 0.007853199654783163 0.09473768063012873 chrMT 16571 2134 0.12877919256532497 0.4240083336308963 chrX 155270560 1735745 0.011178841629733286 0.1197243435816902 chrY 59373566 130540 0.0021986215212338772 0.08586940894621435