BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524506.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 = 642,143 number of mapped reads = 592,933 (92.34%) number of supplementary alignments = 1,358 (0.21%) number of secondary alignments = 0 number of mapped bases = 34,507,116 bp number of sequenced bases = 34,496,217 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 15,836 duplication rate = 2.11% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.4067 >>>>>>> ACTG content number of A's = 8,545,769 bp (24.77%) number of C's = 6,395,837 bp (18.54%) number of T's = 11,104,155 bp (32.19%) number of G's = 8,449,679 bp (24.49%) number of N's = 777 bp (0%) GC percentage = 43.04% >>>>>>> Mismatches and indels general error rate = 0.0047 number of mismatches = 158,443 number of insertions = 2,401 mapped reads with insertion percentage = 0.4% number of deletions = 6,372 mapped reads with deletion percentage = 1.07% homopolymer indels = 43.46% >>>>>>> Coverage mean coverageData = 0.0111X std coverageData = 0.1359X There is a 1.04% 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 3360287 0.0134815591893751 0.22079617665557258 chr2 243199373 2750536 0.011309798894917381 0.14888416541391122 chr3 198022430 1892964 0.009559341333201497 0.10284560938221092 chr4 191154276 1900188 0.009940598974620898 0.11009083908917723 chr5 180915260 2071543 0.011450349738325004 0.11251007060665015 chr6 171115067 1483617 0.008670288514102618 0.10864905345028153 chr7 159138663 1763251 0.01107996615505058 0.16259838626594808 chr8 146364022 3249525 0.022201665105923366 0.16653786934001885 chr9 141213431 1461434 0.010349114738243277 0.12206385441921298 chr10 135534747 1756697 0.012961229787074454 0.13727127722802301 chr11 135006516 1174679 0.008700905962198151 0.1245223424098468 chr12 133851895 1598409 0.011941623986720547 0.11474660129852698 chr13 115169878 793172 0.00688697438752171 0.08760331337155526 chr14 107349540 744867 0.006938706956732185 0.0888957430472463 chr15 102531392 934776 0.009116973658174854 0.10141170487457819 chr16 90354753 1044923 0.011564671091514135 0.11753882631461092 chr17 81195210 1120464 0.013799631776307986 0.12651284575550806 chr18 78077248 821257 0.01051851878795728 0.17753306634890031 chr19 59128983 710368 0.012013871437633217 0.16410612561652863 chr20 63025520 960975 0.015247395023476204 0.13098593055460328 chr21 48129895 461087 0.009580054143064306 0.10641592486074562 chr22 51304566 287093 0.005595856711856796 0.0783027680113438 chrMT 16571 14118 0.8519703095769718 1.054523807451021 chrX 155270560 2045943 0.013176631809661794 0.12710655688008934 chrY 59373566 104943 0.0017675037406377108 0.05845645118539642