BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10251062.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP224945/SRP224945.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 = 3,472,814 number of mapped reads = 3,370,898 (97.07%) number of supplementary alignments = 31,291 (0.9%) number of secondary alignments = 0 number of mapped bases = 262,304,309 bp number of sequenced bases = 262,148,164 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 727,578 duplication rate = 19.37% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 48.286 >>>>>>> ACTG content number of A's = 76,725,057 bp (29.27%) number of C's = 52,500,380 bp (20.03%) number of T's = 77,495,117 bp (29.56%) number of G's = 55,406,250 bp (21.14%) number of N's = 21,360 bp (0.01%) GC percentage = 41.16% >>>>>>> Mismatches and indels general error rate = 0.0058 number of mismatches = 1,464,717 number of insertions = 32,679 mapped reads with insertion percentage = 0.95% number of deletions = 88,472 mapped reads with deletion percentage = 2.58% homopolymer indels = 46.34% >>>>>>> Coverage mean coverageData = 0.0847X std coverageData = 0.7787X There is a 5.69% of reference with a coverageData >= 1X There is a 1.71% of reference with a coverageData >= 2X There is a 0.57% of reference with a coverageData >= 3X There is a 0.2% of reference with a coverageData >= 4X There is a 0.08% of reference with a coverageData >= 5X There is a 0.03% of reference with a coverageData >= 6X There is a 0.02% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% 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 22272725 0.08935875429574155 1.6501746990287887 chr2 243199373 22741281 0.09350879782079044 0.9686585159623095 chr3 198022430 17909899 0.09044378962524599 0.4171394156505973 chr4 191154276 16268740 0.0851079051979983 0.45846157243846253 chr5 180915260 15208610 0.08406482681449867 0.4117187692609657 chr6 171115067 14995643 0.087634848660054 0.469157768772007 chr7 159138663 14284691 0.08976254249415178 0.944896728121283 chr8 146364022 12236517 0.08360331202158411 0.5599877932584382 chr9 141213431 11859072 0.08397977385026499 0.798203130228166 chr10 135534747 15070706 0.11119440832394073 0.8183458375367454 chr11 135006516 12463966 0.09232121803661685 0.5120041570696696 chr12 133851895 11284229 0.08430384194411293 0.41114889548626876 chr13 115169878 7618002 0.06614578509842652 0.3529282221923038 chr14 107349540 7887768 0.07347742710401926 0.5246501914379339 chr15 102531392 7699524 0.07509430867767795 0.3783035245232764 chr16 90354753 7590319 0.0840057523039214 0.629377223201297 chr17 81195210 7756286 0.09552639866317238 0.4886173052508641 chr18 78077248 6370021 0.08158613633513312 0.8901487529290358 chr19 59128983 5614316 0.09495032241633515 1.5044004767505503 chr20 63025520 5554830 0.08813620260491306 0.4397617464176466 chr21 48129895 3142905 0.06530047489195645 0.3835089353528251 chr22 51304566 3335769 0.06501894977534749 0.37038197091850944 chrMT 16571 258272 15.585782390923903 9.384424156648693 chrX 155270560 12221534 0.07871121222207224 0.4296290404760994 chrY 59373566 658684 0.011093893198195304 0.7119826149997114