BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524703.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 = 2,179,127 number of mapped reads = 2,015,224 (92.48%) number of supplementary alignments = 8,322 (0.38%) number of secondary alignments = 0 number of mapped bases = 119,251,813 bp number of sequenced bases = 119,214,810 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 91,475 duplication rate = 3.3% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.7779 >>>>>>> ACTG content number of A's = 29,252,700 bp (24.54%) number of C's = 24,306,922 bp (20.39%) number of T's = 38,037,826 bp (31.91%) number of G's = 27,600,461 bp (23.15%) number of N's = 16,901 bp (0.01%) GC percentage = 43.54% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 600,737 number of insertions = 8,785 mapped reads with insertion percentage = 0.43% number of deletions = 23,283 mapped reads with deletion percentage = 1.15% homopolymer indels = 42.65% >>>>>>> Coverage mean coverageData = 0.0385X std coverageData = 0.3583X There is a 3.4% of reference with a coverageData >= 1X There is a 0.32% 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 9640199 0.03867673011735445 0.6709931640041922 chr2 243199373 10028140 0.04123423459648475 0.4940220463805084 chr3 198022430 7874923 0.039767833371199414 0.2221313271708906 chr4 191154276 7694884 0.04025483583741543 0.2584391085716221 chr5 180915260 7164835 0.03960326508664885 0.22219003350375074 chr6 171115067 6815112 0.03982765585452507 0.2531766651892615 chr7 159138663 6573696 0.04130797554834302 0.42750235848103757 chr8 146364022 6095297 0.04164477661047057 0.38684646407738343 chr9 141213431 4969199 0.035189280260459074 0.2936814732329312 chr10 135534747 5854632 0.0431965391133242 0.3814941217736885 chr11 135006516 5416810 0.040122581935230446 0.2888182383559535 chr12 133851895 5387051 0.04024635586967222 0.2258303553537073 chr13 115169878 3756195 0.03261438724455365 0.20088883999175758 chr14 107349540 3596800 0.033505499883837414 0.21362948190922088 chr15 102531392 3439743 0.03354819370832301 0.20294380597352785 chr16 90354753 3495236 0.0386834768946798 0.2381848235060362 chr17 81195210 3288137 0.040496686935103686 0.23961677704308643 chr18 78077248 3159802 0.040470202023513945 0.5473129077706049 chr19 59128983 2482455 0.04198372564601695 0.4860181135379007 chr20 63025520 2478484 0.03932508609210999 0.22652892348352457 chr21 48129895 1578194 0.03279030631585629 0.2385356854996094 chr22 51304566 1416858 0.027616606288025123 0.18362376543323533 chrMT 16571 35401 2.1363224910989076 1.8974618949491182 chrX 155270560 6612371 0.042586121928071874 0.25623293010597 chrY 59373566 397359 0.006692523740278628 0.2359242279254578