BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714188.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 = 72,632 number of mapped reads = 3,951 (5.44%) number of supplementary alignments = 165 (0.23%) number of secondary alignments = 0 number of mapped bases = 315,938 bp number of sequenced bases = 313,186 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 3,095 duplication rate = 32.52% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 13.9626 >>>>>>> ACTG content number of A's = 37,207 bp (11.88%) number of C's = 22,162 bp (7.08%) number of T's = 27,795 bp (8.87%) number of G's = 226,015 bp (72.17%) number of N's = 7 bp (0%) GC percentage = 79.24% >>>>>>> Mismatches and indels general error rate = 0.0325 number of mismatches = 8,359 number of insertions = 353 mapped reads with insertion percentage = 6.38% number of deletions = 376 mapped reads with deletion percentage = 9.24% homopolymer indels = 43.76% >>>>>>> Coverage mean coverageData = 0.0001X std coverageData = 0.233X 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 2535 1.0170486195097584E-5 0.004704278298670653 chr2 243199373 212927 8.755244611588698E-4 0.8268100588921101 chr3 198022430 3896 1.967453888935713E-5 0.007917669308746277 chr4 191154276 2256 1.180198553340235E-5 0.0042966719073851065 chr5 180915260 2584 1.428293003033575E-5 0.004720855568882912 chr6 171115067 14062 8.21786196068871E-5 0.05849627045315032 chr7 159138663 4554 2.8616553099984258E-5 0.027181480170840936 chr8 146364022 1340 9.155255380997934E-6 0.006078559628051218 chr9 141213431 2289 1.6209506303971892E-5 0.007377053586162463 chr10 135534747 1642 1.211497447219199E-5 0.005243182439239754 chr11 135006516 2152 1.5939971371455878E-5 0.010499823680263242 chr12 133851895 3714 2.774708568750558E-5 0.009040953413748148 chr13 115169878 1613 1.4005398182326806E-5 0.006923704760291575 chr14 107349540 1735 1.6162155888138876E-5 0.01030599413593644 chr15 102531392 2037 1.9867086170058046E-5 0.006083803070311572 chr16 90354753 1161 1.2849351710363262E-5 0.004677634145088634 chr17 81195210 2810 3.460795285830285E-5 0.01800330298823502 chr18 78077248 544 6.967458689117731E-6 0.0029424554739078267 chr19 59128983 9583 1.6206942033824596E-4 0.0824004983910309 chr20 63025520 1688 2.6782801633370103E-5 0.012083196803603211 chr21 48129895 975 2.0257679764312804E-5 0.005329344141638941 chr22 51304566 275 5.360146697274468E-6 0.0030682793245555245 chrMT 16571 592 0.03572506185504797 0.24466083264085198 chrX 155270560 38405 2.4734244534186E-4 0.05978817974925066 chrY 59373566 569 9.583389348721281E-6 0.007196570896658416