BamQC report ----------------------------------- >>>>>>> Input bam file = SRR6008769.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP116771/SRP116771.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 = 10,542 number of mapped reads = 4,306 (40.85%) number of supplementary alignments = 30 (0.28%) number of secondary alignments = 0 number of mapped bases = 276,683 bp number of sequenced bases = 276,525 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 70 duplication rate = 1.01% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8674 >>>>>>> ACTG content number of A's = 75,998 bp (27.48%) number of C's = 49,912 bp (18.05%) number of T's = 86,935 bp (31.44%) number of G's = 63,631 bp (23.01%) number of N's = 49 bp (0.02%) GC percentage = 41.06% >>>>>>> Mismatches and indels general error rate = 0.0091 number of mismatches = 2,477 number of insertions = 23 mapped reads with insertion percentage = 0.53% number of deletions = 93 mapped reads with deletion percentage = 2.11% homopolymer indels = 46.55% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.0099X There is a 0.01% of reference with a coverageData >= 1X There is a 0% 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 25971 1.0419633016681632E-4 0.010342040622489787 chr2 243199373 24135 9.923956506252999E-5 0.010612740305043708 chr3 198022430 18204 9.192897996454241E-5 0.009665160033538706 chr4 191154276 15494 8.105494851708157E-5 0.009601625861229946 chr5 180915260 14829 8.196655163306843E-5 0.010074689689772823 chr6 171115067 17050 9.96405535697216E-5 0.011716312277321384 chr7 159138663 16405 1.0308619973764641E-4 0.010649234681452562 chr8 146364022 18234 1.2457979598292263E-4 0.011156551786643501 chr9 141213431 10752 7.614006630856522E-5 0.009348845280914729 chr10 135534747 17667 1.3035033739355415E-4 0.011524107531115465 chr11 135006516 15560 1.1525369634751555E-4 0.01073328403707009 chr12 133851895 11386 8.506416737693552E-5 0.009279163694224404 chr13 115169878 5731 4.976127525289208E-5 0.007052145289419225 chr14 107349540 6380 5.943201992295449E-5 0.007706570620743848 chr15 102531392 6384 6.22638576876046E-5 0.008074383618319091 chr16 90354753 6640 7.348810969578988E-5 0.008873543083806237 chr17 81195210 7800 9.606478017607196E-5 0.009855306188893315 chr18 78077248 3687 4.722246357863433E-5 0.006869834086780514 chr19 59128983 4539 7.676438473497844E-5 0.009254047450751828 chr20 63025520 7554 1.1985621062706028E-4 0.011021620005685417 chr21 48129895 3018 6.27053102858421E-5 0.007918420191547305 chr22 51304566 1892 3.687780927724834E-5 0.00623727178565499 chrMT 16571 52 0.0031380121899704304 0.055930001514983244 chrX 155270560 16280 1.0484923864511083E-4 0.010702517975581053 chrY 59373566 1039 1.749937000583728E-5 0.005945765428982942