BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751226.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP188831/SRP188831.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 = 5,480,297 number of mapped reads = 5,013,849 (91.49%) number of supplementary alignments = 183,872 (3.36%) number of secondary alignments = 0 number of mapped bases = 491,482,725 bp number of sequenced bases = 491,339,343 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 168,512 duplication rate = 1.86% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.1731 >>>>>>> ACTG content number of A's = 143,537,185 bp (29.21%) number of C's = 102,159,066 bp (20.79%) number of T's = 144,253,637 bp (29.36%) number of G's = 101,386,793 bp (20.63%) number of N's = 2,662 bp (0%) GC percentage = 41.43% >>>>>>> Mismatches and indels general error rate = 0.0041 number of mismatches = 1,835,180 number of insertions = 128,391 mapped reads with insertion percentage = 2.51% number of deletions = 65,810 mapped reads with deletion percentage = 1.29% homopolymer indels = 49.14% >>>>>>> Coverage mean coverageData = 0.1588X std coverageData = 1.4837X There is a 12.08% of reference with a coverageData >= 1X There is a 2.53% of reference with a coverageData >= 2X There is a 0.62% of reference with a coverageData >= 3X There is a 0.18% of reference with a coverageData >= 4X There is a 0.06% of reference with a coverageData >= 5X There is a 0.03% of reference with a coverageData >= 6X There is a 0.02% of reference with a coverageData >= 7X There is a 0.01% of reference with a coverageData >= 8X There is a 0.01% of reference with a coverageData >= 9X There is a 0.01% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% of reference with a coverageData >= 13X There is a 0.01% of reference with a coverageData >= 14X There is a 0.01% 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 60083707 0.24105740141766788 4.1379413277046115 chr2 243199373 38955475 0.16017917529746262 0.6370697039901319 chr3 198022430 33080392 0.16705376254599036 0.56569918749476 chr4 191154276 23259682 0.12168015535263255 0.5005705470600577 chr5 180915260 35540088 0.19644604882971176 0.5351314441260322 chr6 171115067 28331687 0.16557096634862667 0.9229551083014119 chr7 159138663 27964290 0.17572279088457593 0.8335117332126687 chr8 146364022 24582920 0.16795739597809084 0.589374593260388 chr9 141213431 18015220 0.12757440898097008 0.7420607148740852 chr10 135534747 24729718 0.1824603546129761 2.195264393748085 chr11 135006516 22466752 0.16641235301561297 0.7714782299318503 chr12 133851895 26342455 0.19680300379759286 0.5402395006782503 chr13 115169878 14600232 0.1267712726065404 0.42681288839172166 chr14 107349540 10459290 0.0974320896018744 0.40132680572543344 chr15 102531392 11925844 0.11631407481525267 0.4078498671968335 chr16 90354753 13752488 0.152205473905728 0.9764251853585946 chr17 81195210 13275201 0.16349734177668854 0.7564772826702851 chr18 78077248 10391286 0.13308980869817544 1.4548588583765867 chr19 59128983 8987786 0.15200305406910178 2.889924726766806 chr20 63025520 8626705 0.13687637959988272 0.4574705383992758 chr21 48129895 6278170 0.13044221268299047 0.48693636916742916 chr22 51304566 5438270 0.10599972719777027 0.39533270445067353 chrMT 16571 1582554 95.50141814012431 36.13415463710631 chrX 155270560 21684677 0.13965736325031608 0.515292692050525 chrY 59373566 1127836 0.01899559140510442 0.7061883780222397