BamQC report ----------------------------------- >>>>>>> Input bam file = SRR6231843.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP116771/SRP116771.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 = 21,583 number of mapped reads = 4,656 (21.57%) number of supplementary alignments = 44 (0.2%) number of secondary alignments = 0 number of mapped bases = 304,405 bp number of sequenced bases = 304,290 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 950 duplication rate = 2.75% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 43.6689 >>>>>>> ACTG content number of A's = 70,013 bp (23.01%) number of C's = 45,432 bp (14.93%) number of T's = 68,289 bp (22.44%) number of G's = 120,551 bp (39.62%) number of N's = 5 bp (0%) GC percentage = 54.55% >>>>>>> Mismatches and indels general error rate = 0.0097 number of mismatches = 2,673 number of insertions = 103 mapped reads with insertion percentage = 2.13% number of deletions = 51 mapped reads with deletion percentage = 1.1% homopolymer indels = 31.82% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.1158X There is a 0.01% 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 22490 9.023046726932728E-5 0.009608779704275738 chr2 243199373 84035 3.455395421599216E-4 0.4120491526410356 chr3 198022430 25457 1.2855614386713668E-4 0.011596262334126936 chr4 191154276 9457 4.9473128186784584E-5 0.007081350840502844 chr5 180915260 13294 7.348191634027998E-5 0.008620071683474718 chr6 171115067 17836 1.0423395386918208E-4 0.010398689820831506 chr7 159138663 13724 8.623925664123494E-5 0.00935857105676898 chr8 146364022 15610 1.0665189290849086E-4 0.010400855045844789 chr9 141213431 10339 7.321541532405653E-5 0.008578192145951081 chr10 135534747 7476 5.5159286939164024E-5 0.007501356587577145 chr11 135006516 8228 6.094520652617982E-5 0.009720495786281527 chr12 133851895 7420 5.5434403823718745E-5 0.007506680876393177 chr13 115169878 7443 6.462627319966424E-5 0.008120460958702209 chr14 107349540 9672 9.009819697410906E-5 0.009636704193894216 chr15 102531392 5689 5.548544586227797E-5 0.007507989169480087 chr16 90354753 5004 5.538170194544165E-5 0.007553866079387857 chr17 81195210 5169 6.366139086283538E-5 0.007978554887330711 chr18 78077248 6690 8.568437248198092E-5 0.009323057492392027 chr19 59128983 4544 7.684894563466448E-5 0.008747671566958482 chr20 63025520 8844 1.4032410997957652E-4 0.01214005500281138 chr21 48129895 4640 9.640577857067837E-5 0.009986031729408925 chr22 51304566 2067 4.028881172096846E-5 0.006347218960506922 chrMT 16571 168 0.010138193229135237 0.10017689487693233 chrX 155270560 8600 5.538718994766297E-5 0.007544757886847786 chrY 59373566 509 8.57283862653626E-6 0.0029279284712871905