BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524867.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 = 1,536,274 number of mapped reads = 1,392,747 (90.66%) number of supplementary alignments = 8,724 (0.57%) number of secondary alignments = 0 number of mapped bases = 80,787,108 bp number of sequenced bases = 80,763,530 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 38,265 duplication rate = 1.85% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.1724 >>>>>>> ACTG content number of A's = 21,078,340 bp (26.1%) number of C's = 14,816,102 bp (18.35%) number of T's = 25,923,914 bp (32.1%) number of G's = 18,934,351 bp (23.44%) number of N's = 10,823 bp (0.01%) GC percentage = 41.79% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 398,737 number of insertions = 5,302 mapped reads with insertion percentage = 0.38% number of deletions = 14,952 mapped reads with deletion percentage = 1.07% homopolymer indels = 42.65% >>>>>>> Coverage mean coverageData = 0.0261X std coverageData = 0.2603X There is a 2.39% of reference with a coverageData >= 1X There is a 0.14% of reference with a coverageData >= 2X There is a 0.02% 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 6797522 0.027271835764052118 0.4944021962782961 chr2 243199373 5258156 0.021620762977871657 0.2814617837436183 chr3 198022430 5750576 0.02904002339532951 0.1822980849905451 chr4 191154276 4345058 0.022730634600086057 0.17541468525320156 chr5 180915260 4859690 0.026861692043004 0.17548205937151864 chr6 171115067 5276559 0.03083632021720215 0.2036189844030535 chr7 159138663 3708957 0.023306448163385663 0.3453130595569151 chr8 146364022 8604519 0.05878848423555893 0.3387879589878676 chr9 141213431 3353127 0.02374509971363843 0.2181518604001644 chr10 135534747 4014938 0.02962294237358926 0.2555034550582617 chr11 135006516 3858616 0.028580961233011893 0.23356457117730034 chr12 133851895 3199898 0.023906258480688676 0.16780383982960964 chr13 115169878 2076993 0.018034168621764105 0.14286599533689803 chr14 107349540 1712593 0.015953426535409466 0.14596925778459532 chr15 102531392 2420416 0.023606584800877375 0.16409817593626214 chr16 90354753 2412516 0.026700488019706058 0.18597197927578352 chr17 81195210 2256122 0.027786392817999977 0.1961050331323447 chr18 78077248 1943000 0.02488561072234513 0.3859166910813898 chr19 59128983 1288747 0.02179552115753454 0.3195185994131027 chr20 63025520 1769915 0.028082513242254883 0.1816056755403226 chr21 48129895 1157550 0.02405054072941568 0.17368130724480577 chr22 51304566 519251 0.01012095102802351 0.10612651050058196 chrMT 16571 2832 0.17090097157685114 0.4350250377238593 chrX 155270560 3984833 0.025663802590780892 0.1915139086632374 chrY 59373566 214724 0.003616491554507607 0.093955224527214