BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524667.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 = 1,795,636 number of mapped reads = 1,639,793 (91.32%) number of supplementary alignments = 5,406 (0.3%) number of secondary alignments = 0 number of mapped bases = 95,001,856 bp number of sequenced bases = 94,971,513 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 67,594 duplication rate = 3.06% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.1768 >>>>>>> ACTG content number of A's = 24,374,571 bp (25.67%) number of C's = 18,005,779 bp (18.96%) number of T's = 30,421,846 bp (32.03%) number of G's = 22,167,247 bp (23.34%) number of N's = 2,070 bp (0%) GC percentage = 42.3% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 474,536 number of insertions = 7,411 mapped reads with insertion percentage = 0.45% number of deletions = 19,196 mapped reads with deletion percentage = 1.16% homopolymer indels = 43.02% >>>>>>> Coverage mean coverageData = 0.0307X std coverageData = 0.3057X There is a 2.76% of reference with a coverageData >= 1X There is a 0.22% of reference with a coverageData >= 2X There is a 0.03% 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 10415290 0.041786415448890696 0.5941882043107745 chr2 243199373 8218985 0.033795255713919954 0.42341266190188953 chr3 198022430 7825119 0.03951632650907273 0.2180735462185554 chr4 191154276 5566211 0.02911894578806074 0.19825494482057238 chr5 180915260 4479722 0.024761438034580387 0.17227118836349953 chr6 171115067 4837955 0.028273109345771406 0.21738090084827924 chr7 159138663 5729824 0.03600522897443219 0.4236765276766183 chr8 146364022 4546460 0.03106268834290438 0.3005538558184272 chr9 141213431 3213232 0.022754436155580697 0.2058426235965872 chr10 135534747 5304815 0.039139889345128596 0.3229237769913189 chr11 135006516 4449214 0.032955550086189916 0.2408830519595156 chr12 133851895 4454049 0.03327595025830602 0.20371920802954532 chr13 115169878 3092950 0.02685554637819448 0.1804283189482682 chr14 107349540 2857576 0.026619359524037083 0.1820080285963326 chr15 102531392 2697893 0.026312848654195586 0.18135908155661437 chr16 90354753 2603393 0.028813016621272818 0.20507371780432715 chr17 81195210 1957320 0.024106348145413996 0.17520944982505657 chr18 78077248 2120145 0.027154453497131456 0.4048896774927562 chr19 59128983 1703298 0.02880648226268326 0.39605889684458007 chr20 63025520 1757531 0.027886021408470726 0.18517348312883658 chr21 48129895 940229 0.019535238961148782 0.17109690604189506 chr22 51304566 759615 0.014805992121636894 0.13204946192009145 chrMT 16571 5820 0.35121597972361357 0.6368594065257572 chrX 155270560 5185595 0.03339715526240132 0.21611609955684902 chrY 59373566 279615 0.004709419003062743 0.13712615265895609