BamQC report ----------------------------------- >>>>>>> Input bam file = SRR9717032.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 = 602,914 number of mapped reads = 555,314 (92.11%) number of supplementary alignments = 2,713 (0.45%) number of secondary alignments = 0 number of mapped bases = 32,960,203 bp number of sequenced bases = 32,950,307 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 9,482 duplication rate = 1.18% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.8514 >>>>>>> ACTG content number of A's = 8,155,356 bp (24.75%) number of C's = 6,167,044 bp (18.72%) number of T's = 10,479,363 bp (31.8%) number of G's = 8,148,138 bp (24.73%) number of N's = 406 bp (0%) GC percentage = 43.44% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 163,959 number of insertions = 2,368 mapped reads with insertion percentage = 0.42% number of deletions = 6,104 mapped reads with deletion percentage = 1.09% homopolymer indels = 40.32% >>>>>>> Coverage mean coverageData = 0.0106X std coverageData = 0.135X There is a 1.01% of reference with a coverageData >= 1X There is a 0.04% 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 2687727 0.010783230907175954 0.16551319036260198 chr2 243199373 3279787 0.013486001051491198 0.14959595786994517 chr3 198022430 2590964 0.013084194553111989 0.12059087770895008 chr4 191154276 1822593 0.009534670309964712 0.10388330302772537 chr5 180915260 1648052 0.009109524536515052 0.09843509197705398 chr6 171115067 1847349 0.010795945864895696 0.11089410248836526 chr7 159138663 2066456 0.012985254249622545 0.2684693318648179 chr8 146364022 2308470 0.015772113723412164 0.15129000255605024 chr9 141213431 1379382 0.009768065192042532 0.110109866984114 chr10 135534747 1549157 0.011429961941788995 0.16257261816121982 chr11 135006516 986265 0.007305314063507868 0.10092993271153831 chr12 133851895 1529674 0.011428108656959993 0.11613286245089514 chr13 115169878 878453 0.007627454463397104 0.08988978576651706 chr14 107349540 826110 0.007695515043660178 0.09105886911135364 chr15 102531392 777852 0.007586476539789882 0.09093989837446986 chr16 90354753 1013888 0.011221191651091117 0.11155128779061077 chr17 81195210 1365925 0.01682272882846168 0.13513460740545763 chr18 78077248 906611 0.011611718179411241 0.14730222887708508 chr19 59128983 656621 0.0111048925025482 0.16688829363927152 chr20 63025520 732780 0.011626718827547951 0.11375392549224808 chr21 48129895 360611 0.007492453494860107 0.09185084118138453 chr22 51304566 476436 0.009286424915864214 0.09926497794964592 chrMT 16571 38113 2.299981896083519 2.098724861450381 chrX 155270560 1161416 0.007479949837238946 0.09556801592656282 chrY 59373566 69511 0.001170739854163383 0.0418096398705619