BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714224.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 = 229,552 number of mapped reads = 34,645 (15.09%) number of supplementary alignments = 716 (0.31%) number of secondary alignments = 0 number of mapped bases = 3,599,836 bp number of sequenced bases = 3,592,785 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 33,834 duplication rate = 34.58% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 7.2141 >>>>>>> ACTG content number of A's = 85,452 bp (2.38%) number of C's = 28,869 bp (0.8%) number of T's = 41,028 bp (1.14%) number of G's = 3,437,342 bp (95.67%) number of N's = 94 bp (0%) GC percentage = 96.48% >>>>>>> Mismatches and indels general error rate = 0.0336 number of mismatches = 89,672 number of insertions = 4,328 mapped reads with insertion percentage = 8.35% number of deletions = 1,666 mapped reads with deletion percentage = 4.61% homopolymer indels = 64.25% >>>>>>> Coverage mean coverageData = 0.0012X std coverageData = 4.3905X 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 29053 1.16561394645432E-4 0.2697095762672159 chr2 243199373 3450159 0.01418654562074056 15.659568120871441 chr3 198022430 4333 2.1881359601536048E-5 0.008142797204526108 chr4 191154276 2641 1.3816065511398762E-5 0.005933105597447098 chr5 180915260 3206 1.772100374506827E-5 0.005880896200721294 chr6 171115067 2116 1.2365947879972486E-5 0.005058736407066896 chr7 159138663 5073 3.1877859876201174E-5 0.03768313230749502 chr8 146364022 3018 2.061982144765057E-5 0.013971810292237426 chr9 141213431 2290 1.621658778335327E-5 0.007884222411373727 chr10 135534747 26431 1.9501272245706853E-4 0.36095830512196136 chr11 135006516 3028 2.2428547078423978E-5 0.016954418025042033 chr12 133851895 4886 3.6503031951844985E-5 0.030305391343185405 chr13 115169878 722 6.269000302318633E-6 0.0028078402055677397 chr14 107349540 4398 4.096896921961659E-5 0.03851862189692139 chr15 102531392 2493 2.4314504576315515E-5 0.009622146895348044 chr16 90354753 1814 2.0076420329542598E-5 0.007324941706552574 chr17 81195210 4793 5.903057581845037E-5 0.0581684665313676 chr18 78077248 834 1.0681728946184169E-5 0.003578786718052587 chr19 59128983 1834 3.101693800483597E-5 0.009711759295140062 chr20 63025520 1120 1.7770579282804807E-5 0.007651627036643621 chr21 48129895 591 1.2279270503291145E-5 0.005724102346139192 chr22 51304566 588 1.1460968210899591E-5 0.0035703322064554624 chrMT 16571 4951 0.29877496831814615 1.3040685877360634 chrX 155270560 38673 2.490684647495314E-4 0.05286244646863764 chrY 59373566 791 1.3322427020805859E-5 0.006562478631588569