BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714203.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 = 5,420 number of mapped reads = 1,880 (34.69%) number of supplementary alignments = 91 (1.68%) number of secondary alignments = 0 number of mapped bases = 233,630 bp number of sequenced bases = 229,803 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,054 duplication rate = 35.22% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 24.5127 >>>>>>> ACTG content number of A's = 62,415 bp (27.16%) number of C's = 43,583 bp (18.97%) number of T's = 59,243 bp (25.78%) number of G's = 64,558 bp (28.09%) number of N's = 4 bp (0%) GC percentage = 47.06% >>>>>>> Mismatches and indels general error rate = 0.0398 number of mismatches = 8,062 number of insertions = 278 mapped reads with insertion percentage = 14.41% number of deletions = 583 mapped reads with deletion percentage = 29.47% homopolymer indels = 21.37% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.0416X 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 12690 5.0912611367174886E-5 0.017577476902145072 chr2 243199373 27975 1.1502907945408231E-4 0.08287008589861891 chr3 198022430 10411 5.2574852252848326E-5 0.019079751007824795 chr4 191154276 4279 2.2385060326874403E-5 0.008535931796309284 chr5 180915260 17562 9.707307166902339E-5 0.04053540770192088 chr6 171115067 11149 6.515498719934464E-5 0.019538294018466216 chr7 159138663 3741 2.350780086671961E-5 0.008844594884360901 chr8 146364022 6473 4.422534931432808E-5 0.012106368991233565 chr9 141213431 16659 1.1797036501435901E-4 0.0517472419439689 chr10 135534747 6562 4.841562879812658E-5 0.028099356612027088 chr11 135006516 8383 6.20932992597187E-5 0.021959619761737104 chr12 133851895 3573 2.6693682595976694E-5 0.009980450580407169 chr13 115169878 25111 2.1803444126249747E-4 0.11464360087368286 chr14 107349540 27145 2.528655455812852E-4 0.07737238927217123 chr15 102531392 1663 1.6219422828083715E-5 0.006559018377462889 chr16 90354753 2870 3.176368596790918E-5 0.015511128208699949 chr17 81195210 9559 1.1772861970552204E-4 0.04749004146302591 chr18 78077248 1009 1.2923098928896674E-5 0.006006620274753829 chr19 59128983 2856 4.830118590066059E-5 0.013987665617185369 chr20 63025520 2959 4.6949235801624483E-5 0.017229214593590447 chr21 48129895 1617 3.359658274758339E-5 0.011444556457664708 chr22 51304566 2736 5.332858677724708E-5 0.020184332940559904 chrMT 16571 300 0.018103916480598635 0.15931041902685955 chrX 155270560 26348 1.696908931094214E-4 0.02900945331613249 chrY 59373566 0 0.0 0.0