BamQC report ----------------------------------- >>>>>>> Input bam file = SRR3084264.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 = 3,693 number of mapped reads = 918 (24.86%) number of supplementary alignments = 9 (0.24%) number of secondary alignments = 0 number of mapped bases = 59,126 bp number of sequenced bases = 59,112 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1 duplication rate = 0.11% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 39.0313 >>>>>>> ACTG content number of A's = 17,015 bp (28.78%) number of C's = 10,839 bp (18.34%) number of T's = 18,220 bp (30.82%) number of G's = 13,038 bp (22.06%) number of N's = 0 bp (0%) GC percentage = 40.39% >>>>>>> Mismatches and indels general error rate = 0.0087 number of mismatches = 511 number of insertions = 3 mapped reads with insertion percentage = 0.22% number of deletions = 12 mapped reads with deletion percentage = 1.31% homopolymer indels = 33.33% >>>>>>> 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 4096 1.6433258956654717E-5 0.004053267448664552 chr2 243199373 5009 2.059627020502228E-5 0.004538264646169935 chr3 198022430 3673 1.8548403834858507E-5 0.004305573167452487 chr4 191154276 3764 1.9690901395268813E-5 0.004436220387061568 chr5 180915260 3989 2.2048996861845704E-5 0.004694406915860373 chr6 171115067 3632 2.1225483317608728E-5 0.0046070633592850295 chr7 159138663 3899 2.4500645704180638E-5 0.005003415944901853 chr8 146364022 3478 2.376267030978419E-5 0.0048746390271776985 chr9 141213431 2782 1.9700675638990743E-5 0.004437702820379998 chr10 135534747 3708 2.735829801637509E-5 0.005229739167667941 chr11 135006516 2331 1.7265833302445935E-5 0.004154290360498443 chr12 133851895 3253 2.430298054427993E-5 0.004929745420345415 chr13 115169878 1699 1.475212121002681E-5 0.0038408206915900947 chr14 107349540 1580 1.471827452637431E-5 0.003836412112738838 chr15 102531392 1315 1.2825340360150383E-5 0.0035812254705331007 chr16 90354753 1171 1.2960026574362944E-5 0.003599980362734516 chr17 81195210 1485 1.8289256225829085E-5 0.00427655489020494 chr18 78077248 2384 3.0533863078780645E-5 0.005592475871891567 chr19 59128983 981 1.6590848518399175E-5 0.0040731527423047385 chr20 63025520 1099 1.7437380921252216E-5 0.004173872401463294 chr21 48129895 450 9.349698352759755E-6 0.0030577133508392293 chr22 51304566 278 5.418621024881099E-6 0.002327786859535745 chrMT 16571 76 0.004586325508418321 0.06756693811879559 chrX 155270560 2721 1.7524249284603597E-5 0.00418616079305258 chrY 59373566 273 4.598005785941845E-6 0.0021442911752569045