BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525250.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 = 783,492 number of mapped reads = 718,674 (91.73%) number of supplementary alignments = 2,730 (0.35%) number of secondary alignments = 0 number of mapped bases = 41,377,291 bp number of sequenced bases = 41,364,356 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 17,383 duplication rate = 1.73% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8903 >>>>>>> ACTG content number of A's = 10,270,398 bp (24.83%) number of C's = 7,398,722 bp (17.89%) number of T's = 13,662,643 bp (33.03%) number of G's = 10,031,771 bp (24.25%) number of N's = 822 bp (0%) GC percentage = 42.14% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 206,704 number of insertions = 2,947 mapped reads with insertion percentage = 0.41% number of deletions = 8,186 mapped reads with deletion percentage = 1.13% homopolymer indels = 44.7% >>>>>>> Coverage mean coverageData = 0.0134X std coverageData = 0.1629X There is a 1.26% of reference with a coverageData >= 1X There is a 0.05% 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 3617018 0.01451157066525423 0.2576907172722051 chr2 243199373 3454563 0.014204654220058371 0.2024569142142266 chr3 198022430 3329545 0.01681397910327633 0.13572873423029655 chr4 191154276 2412255 0.01261941427875775 0.11978264944846577 chr5 180915260 1908483 0.010549043789893678 0.10706226468196572 chr6 171115067 2664973 0.015574157476150244 0.13834175766050807 chr7 159138663 3121915 0.019617577156595817 0.2724570015206945 chr8 146364022 2415733 0.01650496458754051 0.1670899140196418 chr9 141213431 1383778 0.009799195375403066 0.12427593053145088 chr10 135534747 2230002 0.016453360111411134 0.17697455999387193 chr11 135006516 1907125 0.014126170028711799 0.13880006381134466 chr12 133851895 1858438 0.013884286061097604 0.123281714168758 chr13 115169878 1333384 0.01157754113449699 0.11365184668874966 chr14 107349540 1558050 0.014513802294821198 0.12616312541156857 chr15 102531392 1140909 0.011127411593124572 0.11159472156882837 chr16 90354753 1087696 0.01203806068729998 0.12240363117668175 chr17 81195210 740596 0.009121178453753613 0.10132713044024164 chr18 78077248 891261 0.011415118012356174 0.19367436668018928 chr19 59128983 694863 0.011751648087706837 0.1874056795395133 chr20 63025520 813782 0.012911944240999519 0.11972127027573894 chr21 48129895 546236 0.011349204065373507 0.11340622839249492 chr22 51304566 313271 0.006106103694552255 0.0808993432678579 chrMT 16571 109672 6.618309094200712 4.5567447086548345 chrX 155270560 1731464 0.011151270401807014 0.11516550768176034 chrY 59373566 112279 0.0018910604089368659 0.06435687221986824