BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525076.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 = 760,766 number of mapped reads = 705,078 (92.68%) number of supplementary alignments = 2,411 (0.32%) number of secondary alignments = 0 number of mapped bases = 41,289,450 bp number of sequenced bases = 41,276,625 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 24,545 duplication rate = 2.91% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.9443 >>>>>>> ACTG content number of A's = 9,958,350 bp (24.13%) number of C's = 7,366,181 bp (17.85%) number of T's = 13,587,700 bp (32.92%) number of G's = 10,359,836 bp (25.1%) number of N's = 4,558 bp (0.01%) GC percentage = 42.94% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 192,441 number of insertions = 2,440 mapped reads with insertion percentage = 0.34% number of deletions = 7,869 mapped reads with deletion percentage = 1.11% homopolymer indels = 45.96% >>>>>>> Coverage mean coverageData = 0.0133X std coverageData = 0.1481X There is a 1.23% 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 3211277 0.01288372717835676 0.22124639919983258 chr2 243199373 3467092 0.014256171622613518 0.17446251934469617 chr3 198022430 2773138 0.014004161043776707 0.12594785853387191 chr4 191154276 2691984 0.01408278201425115 0.13624984092472361 chr5 180915260 2562945 0.014166549576857142 0.12607096138487853 chr6 171115067 2380662 0.013912638096328478 0.13103375847134494 chr7 159138663 2151383 0.013518920917414017 0.16089371464813348 chr8 146364022 2064062 0.014102249800159223 0.15133928392887847 chr9 141213431 1676286 0.011870584746290882 0.12941403466773266 chr10 135534747 1995795 0.014725338292770045 0.17010531121649497 chr11 135006516 1891614 0.01401127927780908 0.1388054270054531 chr12 133851895 1992255 0.014884025362509809 0.13070045032828434 chr13 115169878 1287171 0.011176281701019081 0.11233451810035708 chr14 107349540 1212569 0.011295521154538714 0.1141401819684758 chr15 102531392 1177196 0.011481322715290941 0.11381163926819039 chr16 90354753 1280653 0.014173609660578675 0.13078059403933678 chr17 81195210 1117056 0.013757658856969519 0.12870645272006145 chr18 78077248 1189978 0.015241034110218639 0.18797356659745693 chr19 59128983 813439 0.013757026735940986 0.1733018459617743 chr20 63025520 896726 0.014227982569600377 0.12890889547087173 chr21 48129895 526142 0.010931708868261607 0.11886353035948828 chr22 51304566 493992 0.009628616681018215 0.10453132832934914 chrMT 16571 10876 0.6563273188099692 0.8776486412481855 chrX 155270560 2290768 0.014753395621166046 0.1350669687337941 chrY 59373566 134391 0.002263482035086119 0.08457244716025193