BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714267.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 = 441,346 number of mapped reads = 69,058 (15.65%) number of supplementary alignments = 1,144 (0.26%) number of secondary alignments = 0 number of mapped bases = 7,151,475 bp number of sequenced bases = 7,133,441 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 67,636 duplication rate = 32.23% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 10.2172 >>>>>>> ACTG content number of A's = 189,757 bp (2.66%) number of C's = 84,592 bp (1.19%) number of T's = 103,859 bp (1.46%) number of G's = 6,755,080 bp (94.7%) number of N's = 153 bp (0%) GC percentage = 95.88% >>>>>>> Mismatches and indels general error rate = 0.0328 number of mismatches = 180,391 number of insertions = 7,624 mapped reads with insertion percentage = 7.84% number of deletions = 3,689 mapped reads with deletion percentage = 5.17% homopolymer indels = 62.58% >>>>>>> Coverage mean coverageData = 0.0023X std coverageData = 8.627X 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 52574 2.109282608367102E-4 0.45440465397407837 chr2 243199373 6750455 0.027756876659381848 30.77200430245601 chr3 198022430 9129 4.610083817272619E-5 0.0235578088835823 chr4 191154276 11633 6.085660359488898E-5 0.028780947617042103 chr5 180915260 5264 2.9096495232077163E-5 0.007419741115238563 chr6 171115067 6837 3.99555697804215E-5 0.018551670363506967 chr7 159138663 17569 1.1040057562881497E-4 0.08264746351517487 chr8 146364022 6702 4.5789941465259815E-5 0.018337269049582765 chr9 141213431 4180 2.9600583814155752E-5 0.010802866400022343 chr10 135534747 40944 3.02092274536802E-4 0.5689086173743896 chr11 135006516 8480 6.281178309941721E-5 0.03631343747366231 chr12 133851895 8938 6.677529668145528E-5 0.05462417876697389 chr13 115169878 1527 1.3258675154626802E-5 0.003641222234656922 chr14 107349540 7660 7.135568536204253E-5 0.07319483654890495 chr15 102531392 4188 4.0846026941680456E-5 0.015456100629390124 chr16 90354753 4696 5.19729161342514E-5 0.021149487680724315 chr17 81195210 8274 1.019025629713871E-4 0.09823406125685664 chr18 78077248 1592 2.0390062928447477E-5 0.007363091995686709 chr19 59128983 2201 3.72237080417906E-5 0.012287821537359814 chr20 63025520 1700 2.697320069711444E-5 0.01590721937243176 chr21 48129895 639 1.3276571660918853E-5 0.0038109082697696125 chr22 51304566 2041 3.978203421504433E-5 0.011698202463945501 chrMT 16571 2027 0.12232212902057812 1.2144478966699177 chrX 155270560 190950 0.0012297888279658423 0.22256482409302714 chrY 59373566 1275 2.1474202846431693E-5 0.008920785585601354