BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714233.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 269,230 number of mapped reads = 38,665 (14.36%) number of supplementary alignments = 962 (0.36%) number of secondary alignments = 0 number of mapped bases = 3,910,693 bp number of sequenced bases = 3,901,521 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 37,573 duplication rate = 35.25% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 13.3525 >>>>>>> ACTG content number of A's = 117,515 bp (3.01%) number of C's = 56,868 bp (1.46%) number of T's = 74,286 bp (1.9%) number of G's = 3,652,766 bp (93.62%) number of N's = 86 bp (0%) GC percentage = 95.08% >>>>>>> Mismatches and indels general error rate = 0.0334 number of mismatches = 98,364 number of insertions = 4,686 mapped reads with insertion percentage = 8.34% number of deletions = 2,022 mapped reads with deletion percentage = 5.01% homopolymer indels = 60.49% >>>>>>> Coverage mean coverageData = 0.0013X std coverageData = 4.5874X There is a 0% 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 53325 2.1394129244717107E-4 0.3513101028109816 chr2 243199373 3649984 0.01500819658774367 16.360253513497494 chr3 198022430 8850 4.469190687135796E-5 0.023400697405217278 chr4 191154276 8731 4.5675148799705636E-5 0.016777444538644125 chr5 180915260 4690 2.592373910304747E-5 0.008702987640366325 chr6 171115067 4196 2.45215110134048E-5 0.008237373630913343 chr7 159138663 10344 6.499991771327123E-5 0.05726198589276871 chr8 146364022 5018 3.428438171779674E-5 0.013624930360884859 chr9 141213431 2591 1.834811307714774E-5 0.008677386335120033 chr10 135534747 28655 2.1142179872147472E-4 0.3872667182922041 chr11 135006516 4947 3.664267582462464E-5 0.024758212330247113 chr12 133851895 6481 4.841918749077105E-5 0.026056948204320158 chr13 115169878 2036 1.7678233539502403E-5 0.006928084615707289 chr14 107349540 8470 7.890112989771545E-5 0.05025259846973695 chr15 102531392 3905 3.808589665884961E-5 0.011707224309504988 chr16 90354753 3632 4.019711060468507E-5 0.013092848843120062 chr17 81195210 5554 6.840304988434663E-5 0.05124967874056537 chr18 78077248 5047 6.464111030142866E-5 0.030481583922022184 chr19 59128983 6092 1.0302900017745951E-4 0.02994111252336063 chr20 63025520 4508 7.152658161328934E-5 0.0211090539689597 chr21 48129895 2451 5.0924690361364804E-5 0.013644818303683423 chr22 51304566 1061 2.068042053021168E-5 0.005947819215572838 chrMT 16571 10675 0.6441976947679682 2.565321272967991 chrX 155270560 64311 4.1418669450280854E-4 0.06720406005947172 chrY 59373566 5139 8.655366935514703E-5 0.019757739273233717