BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714046.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 = 12,562 number of mapped reads = 3,448 (27.45%) number of supplementary alignments = 107 (0.85%) number of secondary alignments = 0 number of mapped bases = 399,691 bp number of sequenced bases = 393,456 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 2,589 duplication rate = 45.65% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 18.7591 >>>>>>> ACTG content number of A's = 73,449 bp (18.67%) number of C's = 61,563 bp (15.65%) number of T's = 67,956 bp (17.27%) number of G's = 190,475 bp (48.41%) number of N's = 13 bp (0%) GC percentage = 64.06% >>>>>>> Mismatches and indels general error rate = 0.0361 number of mismatches = 13,024 number of insertions = 228 mapped reads with insertion percentage = 5.57% number of deletions = 792 mapped reads with deletion percentage = 21.72% homopolymer indels = 34.22% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.1705X 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 16929 6.791959005791203E-5 0.043770976080393896 chr2 243199373 140518 5.777893185604554E-4 0.5923219529571501 chr3 198022430 2494 1.259453285165726E-5 0.005617550780037942 chr4 191154276 7345 3.8424460878918556E-5 0.02848087217396739 chr5 180915260 3470 1.9180250466433844E-5 0.007982486301326292 chr6 171115067 6808 3.978609317904191E-5 0.02240822121479816 chr7 159138663 4564 2.8679391380836222E-5 0.018142383872994633 chr8 146364022 15966 1.0908418463657688E-4 0.055388385387301474 chr9 141213431 689 4.8791392937687355E-6 0.003314113865653297 chr10 135534747 3024 2.2311621683257357E-5 0.009505404577954686 chr11 135006516 3061 2.2672979724919352E-5 0.00813520084935313 chr12 133851895 4266 3.18710467266825E-5 0.014526641019073947 chr13 115169878 4629 4.019280110724785E-5 0.01657712710194961 chr14 107349540 3485 3.246404223064207E-5 0.020909258816103705 chr15 102531392 737 7.188042468008237E-6 0.0036164719778033474 chr16 90354753 6872 7.605576654058254E-5 0.0349327288094364 chr17 81195210 5411 6.664186224778531E-5 0.02765291323568517 chr18 78077248 311 3.983234654991938E-6 0.0019958002878127917 chr19 59128983 2592 4.383637039723819E-5 0.02835673813274243 chr20 63025520 11036 1.751036722902088E-4 0.06192650548117921 chr21 48129895 745 1.547894505068004E-5 0.007953996013908218 chr22 51304566 144 2.806767725118267E-6 0.002023164613796682 chrMT 16571 150 0.009051958240299317 0.09471019106894038 chrX 155270560 153932 9.91379177095774E-4 0.13509203713954232 chrY 59373566 513 8.640208674681928E-6 0.002939410488767431