BamQC report ----------------------------------- >>>>>>> Input bam file = SRR3081121.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP064210/SRP064210.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 = 3,637 number of mapped reads = 887 (24.39%) number of supplementary alignments = 2 (0.05%) number of secondary alignments = 0 number of mapped bases = 59,853 bp number of sequenced bases = 59,841 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 0 duplication rate = 0% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 38.0097 >>>>>>> ACTG content number of A's = 16,625 bp (27.78%) number of C's = 11,148 bp (18.63%) number of T's = 19,054 bp (31.84%) number of G's = 13,014 bp (21.75%) number of N's = 0 bp (0%) GC percentage = 40.38% >>>>>>> Mismatches and indels general error rate = 0.0071 number of mismatches = 425 number of insertions = 1 mapped reads with insertion percentage = 0.11% number of deletions = 8 mapped reads with deletion percentage = 0.9% homopolymer indels = 66.67% >>>>>>> Coverage mean coverageData = 0X std coverageData = 0.0044X 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 4917 1.9727132394988096E-5 0.004441479847442242 chr2 243199373 5175 2.127883775424043E-5 0.0046128499829611045 chr3 198022430 4593 2.3194342176287808E-5 0.004815994621963237 chr4 191154276 4405 2.3044213774218682E-5 0.004798748725662691 chr5 180915260 3429 1.8953625028646006E-5 0.0043535348613218065 chr6 171115067 4875 2.848960109398198E-5 0.005396831295302538 chr7 159138663 2523 1.5854098258950436E-5 0.003981688951502721 chr8 146364022 3521 2.4056458355592333E-5 0.004902589498230632 chr9 141213431 2573 1.8220646448282953E-5 0.0042685260285402924 chr10 135534747 2385 1.759696352995E-5 0.004194836573315404 chr11 135006516 2784 2.0621226904336972E-5 0.004540197674653499 chr12 133851895 2705 2.020890328074922E-5 0.004495385954618069 chr13 115169878 1265 1.0983774767912838E-5 0.0033128494516717188 chr14 107349540 1483 1.3814684254818418E-5 0.003716785359597371 chr15 102531392 1068 1.0416322056760919E-5 0.003227415925627766 chr16 90354753 2339 2.5886850689525986E-5 0.005087846357791022 chr17 81195210 1258 1.5493524802756223E-5 0.003936151007449461 chr18 78077248 1882 2.4104333185513916E-5 0.0049082527395817015 chr19 59128983 1238 2.093727876226114E-5 0.004571981785738528 chr20 63025520 1301 2.0642431827615227E-5 0.004543347413265187 chr21 48129895 894 1.8574734060816047E-5 0.004309801508198564 chr22 51304566 599 1.167537407879057E-5 0.003416904705201872 chrMT 16571 76 0.004586325508418321 0.06756693811879559 chrX 155270560 2402 1.546977095980075E-5 0.003933132548743711 chrY 59373566 163 2.7453294619359733E-6 0.0016569013021607891