BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714244.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 = 339,800 number of mapped reads = 42,229 (12.43%) number of supplementary alignments = 788 (0.23%) number of secondary alignments = 0 number of mapped bases = 4,419,145 bp number of sequenced bases = 4,409,045 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 40,990 duplication rate = 28.96% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 10.0414 >>>>>>> ACTG content number of A's = 102,764 bp (2.33%) number of C's = 36,379 bp (0.83%) number of T's = 43,990 bp (1%) number of G's = 4,225,769 bp (95.84%) number of N's = 143 bp (0%) GC percentage = 96.67% >>>>>>> Mismatches and indels general error rate = 0.0333 number of mismatches = 111,602 number of insertions = 4,939 mapped reads with insertion percentage = 8.37% number of deletions = 2,303 mapped reads with deletion percentage = 5.27% homopolymer indels = 62.59% >>>>>>> Coverage mean coverageData = 0.0014X std coverageData = 5.3474X 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 5248 2.1055113038213854E-5 0.008060665409152836 chr2 243199373 4243629 0.017449177387476242 19.07793192159253 chr3 198022430 4368 2.2058107255829555E-5 0.007683965965493984 chr4 191154276 5056 2.64498399188308E-5 0.007985926206949025 chr5 180915260 4089 2.260174183205994E-5 0.005777043466374597 chr6 171115067 4096 2.3937108939682092E-5 0.010441526607183638 chr7 159138663 8896 5.590093464590688E-5 0.07395091007467686 chr8 146364022 4307 2.942663054175978E-5 0.013620929411373044 chr9 141213431 3318 2.34963485874088E-5 0.012250312634267728 chr10 135534747 6477 4.7788483347373645E-5 0.021675460354615816 chr11 135006516 3762 2.786532170047259E-5 0.02274635075579176 chr12 133851895 8611 6.433229802237764E-5 0.053473311597198515 chr13 115169878 2437 2.1160046726801255E-5 0.006983623704828109 chr14 107349540 5815 5.416883947523203E-5 0.05698954209947913 chr15 102531392 3070 2.994204935791762E-5 0.011139914174969666 chr16 90354753 2376 2.6296347686324813E-5 0.01194400302234098 chr17 81195210 5353 6.5927534395194E-5 0.05836355889793207 chr18 78077248 1311 1.6791063127634826E-5 0.0046592906157252294 chr19 59128983 2051 3.468688105120969E-5 0.012470216170656101 chr20 63025520 2021 3.206637565227546E-5 0.016054647435912416 chr21 48129895 448 9.308144137858602E-6 0.003050910928937669 chr22 51304566 481 9.375383859596435E-6 0.003774673044868893 chrMT 16571 2738 0.16522841107959688 0.8461236135032362 chrX 155270560 87533 5.637449881033468E-4 0.10392656316717043 chrY 59373566 1654 2.785751490823374E-5 0.011004403175739506