BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714232.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 = 269,374 number of mapped reads = 34,274 (12.72%) number of supplementary alignments = 1,384 (0.51%) number of secondary alignments = 0 number of mapped bases = 3,672,251 bp number of sequenced bases = 3,661,795 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 33,330 duplication rate = 27.19% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 9.7678 >>>>>>> ACTG content number of A's = 127,535 bp (3.48%) number of C's = 43,458 bp (1.19%) number of T's = 55,356 bp (1.51%) number of G's = 3,435,398 bp (93.82%) number of N's = 48 bp (0%) GC percentage = 95% >>>>>>> Mismatches and indels general error rate = 0.0363 number of mismatches = 94,629 number of insertions = 5,035 mapped reads with insertion percentage = 9.6% number of deletions = 2,176 mapped reads with deletion percentage = 6.07% homopolymer indels = 68.63% >>>>>>> Coverage mean coverageData = 0.0012X std coverageData = 4.2517X 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 16615 6.665981385859818E-5 0.10318448644607997 chr2 243199373 3439950 0.014144567716463644 15.167628793425857 chr3 198022430 5649 2.8527071402971877E-5 0.009186877824657566 chr4 191154276 5782 3.0247819305909744E-5 0.01007411499765539 chr5 180915260 9012 4.981337671570657E-5 0.024032149695432145 chr6 171115067 4834 2.824999624375567E-5 0.011223244847543182 chr7 159138663 8715 5.476356176248634E-5 0.045009196829951574 chr8 146364022 2633 1.7989393595647435E-5 0.005920819686055138 chr9 141213431 2948 2.087620121629932E-5 0.009090288630245988 chr10 135534747 14323 1.0567769754275633E-4 0.11615667838972529 chr11 135006516 3648 2.7020918012579483E-5 0.0176139424810993 chr12 133851895 12956 9.679354931807278E-5 0.07074074542721377 chr13 115169878 2321 2.01528389219966E-5 0.004910376909878783 chr14 107349540 4902 4.566391248625751E-5 0.03887692972122739 chr15 102531392 3396 3.312156339397011E-5 0.015819725642988294 chr16 90354753 2109 2.3341328817533263E-5 0.006468819155042858 chr17 81195210 8397 1.0341743065877901E-4 0.1027825155208566 chr18 78077248 1366 1.7495493693630184E-5 0.00435082341520161 chr19 59128983 2429 4.107968506747359E-5 0.0144737515987268 chr20 63025520 2424 3.846061087635612E-5 0.014770379886042033 chr21 48129895 779 1.6185366703999667E-5 0.004752310509407242 chr22 51304566 575 1.1207579457937526E-5 0.003347753552473691 chrMT 16571 1180 0.0712087381570213 0.43009984353527436 chrX 155270560 113685 7.321735685116355E-4 0.1557078494768454 chrY 59373566 1623 2.7335397035104814E-5 0.011435231398953154