BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9867842.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 = 2,093,341 number of mapped reads = 1,939,793 (92.66%) number of supplementary alignments = 9,054 (0.43%) number of secondary alignments = 0 number of mapped bases = 115,167,847 bp number of sequenced bases = 115,132,227 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 85,785 duplication rate = 3.25% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.8895 >>>>>>> ACTG content number of A's = 28,135,491 bp (24.44%) number of C's = 21,695,646 bp (18.84%) number of T's = 36,646,212 bp (31.83%) number of G's = 28,639,416 bp (24.88%) number of N's = 15,462 bp (0.01%) GC percentage = 43.72% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 579,689 number of insertions = 8,315 mapped reads with insertion percentage = 0.43% number of deletions = 22,397 mapped reads with deletion percentage = 1.14% homopolymer indels = 43.82% >>>>>>> Coverage mean coverageData = 0.0372X std coverageData = 0.3363X There is a 3.3% of reference with a coverageData >= 1X There is a 0.3% of reference with a coverageData >= 2X There is a 0.04% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% 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 9235567 0.0370533359674157 0.6094085559851655 chr2 243199373 9729395 0.040005839159790925 0.4586872308543111 chr3 198022430 7684795 0.03880769971361325 0.21618060369315398 chr4 191154276 7294546 0.038160517005646266 0.25185860588534087 chr5 180915260 6970723 0.03853032077006661 0.2185335236970006 chr6 171115067 6603510 0.03859104937848635 0.2482299849948711 chr7 159138663 6350765 0.039907115469482106 0.3994191278732384 chr8 146364022 5853333 0.039991610779867744 0.35931503577542867 chr9 141213431 4812211 0.03407757297533547 0.2724842631103476 chr10 135534747 5609891 0.041390795527880386 0.3512437901896489 chr11 135006516 5284632 0.03914353289436785 0.2893857021690486 chr12 133851895 5238818 0.039138915440831076 0.2201850192710884 chr13 115169878 3585843 0.03113525048624259 0.195144888713769 chr14 107349540 3447695 0.03211653259063802 0.20400469614989653 chr15 102531392 3266045 0.031854097913739436 0.19742752840756464 chr16 90354753 3382255 0.03743306121372497 0.2372044281714318 chr17 81195210 3164906 0.038978974252298876 0.23274278378554725 chr18 78077248 3055237 0.03913095143927204 0.5169249517193678 chr19 59128983 2398634 0.040566129811500394 0.4730814735474158 chr20 63025520 2500552 0.039675229970335825 0.2247333700686183 chr21 48129895 1537711 0.03194918667493457 0.23782535213242736 chr22 51304566 1360689 0.02652179145224618 0.1792168361920949 chrMT 16571 15080 0.9100235350914248 1.094443288862073 chrX 155270560 6409485 0.04127946083275542 0.25038077836128336 chrY 59373566 375529 0.0063248517025236446 0.21509570623883845