BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524649.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 = 832,521 number of mapped reads = 769,495 (92.43%) number of supplementary alignments = 3,008 (0.36%) number of secondary alignments = 0 number of mapped bases = 44,782,184 bp number of sequenced bases = 44,767,529 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 25,662 duplication rate = 2.62% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8576 >>>>>>> ACTG content number of A's = 10,967,888 bp (24.5%) number of C's = 8,385,163 bp (18.73%) number of T's = 14,432,801 bp (32.24%) number of G's = 10,981,291 bp (24.53%) number of N's = 386 bp (0%) GC percentage = 43.26% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 223,937 number of insertions = 2,603 mapped reads with insertion percentage = 0.34% number of deletions = 8,617 mapped reads with deletion percentage = 1.11% homopolymer indels = 42.84% >>>>>>> Coverage mean coverageData = 0.0145X std coverageData = 0.1612X There is a 1.33% of reference with a coverageData >= 1X There is a 0.08% of reference with a coverageData >= 2X There is a 0.01% 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 4655713 0.018678842128140576 0.2648424649078849 chr2 243199373 3960119 0.016283426026760358 0.1908773945808218 chr3 198022430 2696747 0.0136183916135157 0.1252759293587655 chr4 191154276 2050286 0.010725818134458054 0.12989602640433115 chr5 180915260 2750384 0.015202609221576997 0.13112400117637432 chr6 171115067 2906065 0.016983104123729793 0.1430273542003326 chr7 159138663 2749369 0.017276562138768253 0.19558898531693525 chr8 146364022 3923890 0.02680911569921193 0.20936288180523566 chr9 141213431 1658328 0.011743415539560114 0.1315812555109386 chr10 135534747 1992896 0.014703948943808484 0.17997030495569186 chr11 135006516 2235591 0.016559134079128447 0.14919979903988698 chr12 133851895 1388514 0.010373510214405258 0.10996053272989278 chr13 115169878 1064178 0.00924007230432249 0.10212283399236584 chr14 107349540 828108 0.007714127140181504 0.09570128077020384 chr15 102531392 1174541 0.011455428206807141 0.11435891797865118 chr16 90354753 1352006 0.014963308017675618 0.13451203505828258 chr17 81195210 1011045 0.012452027650399574 0.1212657673861387 chr18 78077248 1178130 0.015089286958474765 0.19752928387789845 chr19 59128983 918454 0.015533059312046682 0.1861760506247099 chr20 63025520 840624 0.01333783521341831 0.12445284383715356 chr21 48129895 412785 0.008576478298986523 0.11379376644291757 chr22 51304566 852803 0.016622360668639122 0.13703515669824465 chrMT 16571 6262 0.3778890833383622 0.6757816672229144 chrX 155270560 2042639 0.013155352824128412 0.12961760969835628 chrY 59373566 132707 0.0022351192448167925 0.09119967919859336