BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751207.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 5,062,167 number of mapped reads = 3,025,580 (59.77%) number of supplementary alignments = 175,462 (3.47%) number of secondary alignments = 0 number of mapped bases = 296,050,512 bp number of sequenced bases = 295,946,961 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 117,629 duplication rate = 1.85% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.9336 >>>>>>> ACTG content number of A's = 87,682,030 bp (29.63%) number of C's = 60,341,480 bp (20.39%) number of T's = 88,336,762 bp (29.85%) number of G's = 59,584,514 bp (20.13%) number of N's = 2,175 bp (0%) GC percentage = 40.52% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 1,233,820 number of insertions = 170,820 mapped reads with insertion percentage = 5.44% number of deletions = 45,793 mapped reads with deletion percentage = 1.48% homopolymer indels = 51.6% >>>>>>> Coverage mean coverageData = 0.0956X std coverageData = 1.3168X There is a 7.67% of reference with a coverageData >= 1X There is a 1.23% of reference with a coverageData >= 2X There is a 0.26% of reference with a coverageData >= 3X There is a 0.07% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.02% of reference with a coverageData >= 6X There is a 0.01% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% 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 27698417 0.11112677227793145 3.808736812434395 chr2 243199373 22642790 0.09310381733591065 0.5695433739006032 chr3 198022430 18955800 0.0957255195787669 0.43109768358386197 chr4 191154276 16801907 0.08789710254768247 0.4467986142793611 chr5 180915260 25678381 0.14193595940994697 0.48870766290446016 chr6 171115067 14969526 0.08748222037045984 0.5873646754435822 chr7 159138663 17176759 0.10793580061684947 0.7595893701825077 chr8 146364022 20324207 0.13886067574721334 0.9184986777950318 chr9 141213431 12950745 0.09171043369097094 0.65514952732161 chr10 135534747 12850362 0.09481230669209867 1.6308288447168746 chr11 135006516 13081590 0.09689598982022468 0.5643400248314288 chr12 133851895 12882106 0.09624149138867254 0.3906523689540428 chr13 115169878 8933873 0.07757126390287572 0.3239484924643871 chr14 107349540 7549621 0.07032746484055731 0.3282132024399157 chr15 102531392 9200969 0.08973806773246577 0.3471724340396427 chr16 90354753 8023671 0.0888018696703205 0.6723248991599627 chr17 81195210 8019013 0.09876214372744402 0.5612192407579902 chr18 78077248 5382580 0.06893916138027815 1.4794857972330384 chr19 59128983 5523990 0.09342271285132707 2.657122268317643 chr20 63025520 5362843 0.08509002385065605 0.3587036876086269 chr21 48129895 4159283 0.08641786980835924 0.4055461123597989 chr22 51304566 2547111 0.0496468676881508 0.2598542378758035 chrMT 16571 241539 14.57600627602438 15.541041335505012 chrX 155270560 13954705 0.08987347633704676 0.4020918502135775 chrY 59373566 1138724 0.019178972676156928 0.9338649235594292