BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524730.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 = 614,363 number of mapped reads = 460,926 (75.03%) number of supplementary alignments = 2,091 (0.34%) number of secondary alignments = 0 number of mapped bases = 26,362,137 bp number of sequenced bases = 26,353,473 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 7,330 duplication rate = 1.14% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.3569 >>>>>>> ACTG content number of A's = 6,387,085 bp (24.24%) number of C's = 4,890,610 bp (18.56%) number of T's = 8,464,091 bp (32.12%) number of G's = 6,608,488 bp (25.08%) number of N's = 3,199 bp (0.01%) GC percentage = 43.63% >>>>>>> Mismatches and indels general error rate = 0.0054 number of mismatches = 136,629 number of insertions = 2,227 mapped reads with insertion percentage = 0.48% number of deletions = 5,395 mapped reads with deletion percentage = 1.16% homopolymer indels = 40.27% >>>>>>> Coverage mean coverageData = 0.0085X std coverageData = 0.109X There is a 0.81% of reference with a coverageData >= 1X There is a 0.03% of reference with a coverageData >= 2X There is a 0% 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 2095233 0.008406129507697395 0.13240726305045808 chr2 243199373 2205931 0.009070463351893591 0.1421418243657017 chr3 198022430 1726239 0.00871739125714193 0.0969696770657893 chr4 191154276 1700590 0.00889642667475563 0.1018394775094222 chr5 180915260 1584789 0.008759841486008422 0.09655607941414013 chr6 171115067 1509455 0.008821286321911091 0.09953350092890402 chr7 159138663 1472305 0.009251711508975038 0.13064896152324693 chr8 146364022 1335989 0.009127851105376155 0.10788708214624936 chr9 141213431 1119885 0.007930442537013353 0.10176769320427088 chr10 135534747 1269873 0.009369353823340962 0.12035739560899619 chr11 135006516 1198384 0.00887649007993066 0.10477856271941645 chr12 133851895 1183845 0.008844439594971741 0.09763269858889395 chr13 115169878 817808 0.00710088448648005 0.08693359507936788 chr14 107349540 793106 0.007388070782604192 0.09073714624612202 chr15 102531392 774744 0.007556163872231443 0.09011107677248158 chr16 90354753 778250 0.008613271290775373 0.09904296481074444 chr17 81195210 734764 0.009049351556575812 0.09972584498099236 chr18 78077248 699827 0.008963264176524254 0.13266126790634777 chr19 59128983 562589 0.009514606398692838 0.11723561525323238 chr20 63025520 567135 0.008998497751387058 0.09921043326325016 chr21 48129895 341419 0.007093699248668629 0.0899857321857669 chr22 51304566 324104 0.006317254491539798 0.08202750116913042 chrMT 16571 8605 0.5192806710518375 0.813286134338256 chrX 155270560 1469494 0.00946408643080826 0.10386305664640567 chrY 59373566 87774 0.001478334651484467 0.05328365696834584