BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714214.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 = 6,274 number of mapped reads = 834 (13.29%) number of supplementary alignments = 21 (0.33%) number of secondary alignments = 0 number of mapped bases = 74,378 bp number of sequenced bases = 73,971 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 569 duplication rate = 27.27% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 5.413 >>>>>>> ACTG content number of A's = 7,036 bp (9.51%) number of C's = 4,258 bp (5.76%) number of T's = 4,915 bp (6.64%) number of G's = 57,762 bp (78.09%) number of N's = 0 bp (0%) GC percentage = 83.84% >>>>>>> Mismatches and indels general error rate = 0.0365 number of mismatches = 2,003 number of insertions = 128 mapped reads with insertion percentage = 10.79% number of deletions = 59 mapped reads with deletion percentage = 6.95% homopolymer indels = 44.92% >>>>>>> Coverage mean coverageData = 0X std coverageData = 0.0668X 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 425 1.7051110977974253E-6 0.0015109070412859511 chr2 243199373 54779 2.252431793892824E-4 0.2367461446459694 chr3 198022430 507 2.5603160207659303E-6 0.0016951122737454544 chr4 191154276 502 2.626151036244672E-6 0.001849679501129361 chr5 180915260 187 1.0336330943006134E-6 0.001016676952577976 chr6 171115067 295 1.7239861174819866E-6 0.0015498030684161757 chr7 159138663 433 2.720897560890027E-6 0.0026279116542127653 chr8 146364022 1003 6.852776975478304E-6 0.0045566712556180675 chr9 141213431 417 2.9529769020341983E-6 0.0016724761749199607 chr10 135534747 180 1.3280727192415093E-6 0.0011524196091113523 chr11 135006516 493 3.6516755976430056E-6 0.0021550422903634974 chr12 133851895 630 4.706694664278007E-6 0.0028299875830486436 chr13 115169878 3899 3.3854338197701314E-5 0.028267223286971916 chr14 107349540 428 3.986975631195066E-6 0.003021430200389727 chr15 102531392 133 1.2971637018250956E-6 0.001138930208217969 chr16 90354753 828 9.163878739173798E-6 0.0036745409310586677 chr17 81195210 675 8.313298284467765E-6 0.004136042959023458 chr18 78077248 81 1.037434106284074E-6 0.001018544564569734 chr19 59128983 67 1.1331160557928081E-6 0.0010644786385084542 chr20 63025520 151 2.3958548854495766E-6 0.0015478530761441618 chr21 48129895 41 8.518614054736667E-7 9.229629894019653E-4 chr22 51304566 35 6.822004887440233E-7 8.259540080092332E-4 chrMT 16571 302 0.01822460925713596 0.14892704932391643 chrX 155270560 7887 5.079520547874626E-5 0.01920044994763245 chrY 59373566 0 0.0 0.0