BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751184.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 = 4,847,416 number of mapped reads = 4,520,456 (93.25%) number of supplementary alignments = 156,779 (3.23%) number of secondary alignments = 0 number of mapped bases = 445,033,122 bp number of sequenced bases = 444,898,815 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 105,340 duplication rate = 1.44% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 51.3656 >>>>>>> ACTG content number of A's = 129,151,694 bp (29.03%) number of C's = 93,371,295 bp (20.99%) number of T's = 129,514,677 bp (29.11%) number of G's = 92,858,766 bp (20.87%) number of N's = 2,383 bp (0%) GC percentage = 41.86% >>>>>>> Mismatches and indels general error rate = 0.0038 number of mismatches = 1,525,955 number of insertions = 126,708 mapped reads with insertion percentage = 2.74% number of deletions = 60,996 mapped reads with deletion percentage = 1.32% homopolymer indels = 49.72% >>>>>>> Coverage mean coverageData = 0.1438X std coverageData = 1.0023X There is a 11.51% of reference with a coverageData >= 1X There is a 2.07% of reference with a coverageData >= 2X There is a 0.42% of reference with a coverageData >= 3X There is a 0.1% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.01% of reference with a coverageData >= 6X There is a 0.01% 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% 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 55333559 0.22199968360359673 2.7003152293063923 chr2 243199373 34348876 0.14123751873324114 0.5086199047277894 chr3 198022430 29572050 0.14933687057572215 0.46932712396822035 chr4 191154276 18593515 0.09726967865474273 0.39020327650877945 chr5 180915260 34375738 0.19001016276902236 0.5064489061941954 chr6 171115067 25562772 0.1493893696690076 0.7245938870402735 chr7 159138663 23463989 0.14744367306893863 0.6185072834280607 chr8 146364022 21141124 0.14444208153831684 0.4851683291912059 chr9 141213431 19761301 0.13993924558068419 0.5751034552611185 chr10 135534747 21901393 0.16159245864826088 1.3842294615658897 chr11 135006516 20463307 0.15157273594113044 0.57813513550607 chr12 133851895 23740023 0.17736038029196374 0.4874117800787435 chr13 115169878 11675168 0.10137345113797898 0.3640945215197761 chr14 107349540 9582576 0.08926517989737077 0.3521384514846068 chr15 102531392 11897495 0.11603758388455314 0.3933425646931943 chr16 90354753 13008526 0.14397168458863477 0.7944557123389022 chr17 81195210 14090203 0.17353490433733715 0.6289238017163508 chr18 78077248 8856030 0.1134265131885796 1.036816896644344 chr19 59128983 9214796 0.15584228803664693 1.940999993724849 chr20 63025520 8403137 0.13332911810961656 0.4259059334915356 chr21 48129895 5444158 0.11311385574391966 0.4143072876799931 chr22 51304566 5860442 0.11422846847588575 0.39511066129363925 chrMT 16571 618174 37.304568221591936 15.821536778282555 chrX 155270560 17278736 0.11128146894040956 0.41940150945568677 chrY 59373566 846034 0.014249337828218031 0.5019108869416457