BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751206.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 = 4,937,462 number of mapped reads = 2,992,899 (60.62%) number of supplementary alignments = 207,040 (4.19%) number of secondary alignments = 0 number of mapped bases = 289,905,482 bp number of sequenced bases = 289,792,406 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 127,749 duplication rate = 1.89% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.6571 >>>>>>> ACTG content number of A's = 85,032,236 bp (29.34%) number of C's = 59,923,796 bp (20.68%) number of T's = 85,586,557 bp (29.53%) number of G's = 59,247,736 bp (20.44%) number of N's = 2,081 bp (0%) GC percentage = 41.12% >>>>>>> Mismatches and indels general error rate = 0.0054 number of mismatches = 1,306,787 number of insertions = 188,123 mapped reads with insertion percentage = 6.04% number of deletions = 48,508 mapped reads with deletion percentage = 1.58% homopolymer indels = 51.24% >>>>>>> Coverage mean coverageData = 0.0936X std coverageData = 1.4133X There is a 7.55% of reference with a coverageData >= 1X There is a 1.15% of reference with a coverageData >= 2X There is a 0.23% of reference with a coverageData >= 3X There is a 0.07% of reference with a coverageData >= 4X There is a 0.03% of reference with a coverageData >= 5X There is a 0.02% 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 0.01% of reference with a coverageData >= 12X There is a 0.01% 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 27014105 0.10838129466485863 4.077630119953995 chr2 243199373 21816548 0.08970643193228957 0.600147889749806 chr3 198022430 18180442 0.09181001364340394 0.4368804274141394 chr4 191154276 15987484 0.08363654915048827 0.42860536549261 chr5 180915260 24419997 0.1349803051439663 0.5032642083936961 chr6 171115067 14345689 0.08383650400581032 0.6458190028632524 chr7 159138663 16741719 0.10520208404666564 0.8076181025977217 chr8 146364022 19591519 0.1338547460796069 1.005968765597988 chr9 141213431 12328759 0.0873058526564658 0.6766523982072659 chr10 135534747 12834690 0.09469667582734337 1.811796346364178 chr11 135006516 12767556 0.09456992431387534 0.604536691979922 chr12 133851895 12477201 0.09321646884416541 0.38276371268943776 chr13 115169878 10912257 0.09474922774512273 0.3544408555336669 chr14 107349540 7368579 0.06864099277928903 0.3370321785281736 chr15 102531392 9118612 0.08893483080771984 0.34418666155285327 chr16 90354753 8368542 0.09261872477256398 0.7526768997424953 chr17 81195210 8279561 0.10197105223325366 0.5849043731399137 chr18 78077248 5121124 0.06559047777913483 1.734562900650603 chr19 59128983 6087433 0.10295176225168629 2.7732251495528706 chr20 63025520 5448530 0.08644958423191114 0.35755646382836787 chr21 48129895 3258683 0.06770600683836937 0.37128979883011776 chr22 51304566 2748375 0.05356979337862443 0.2712209027285915 chrMT 16571 151305 9.130710276989921 15.345596119439701 chrX 155270560 13197049 0.08499389066414136 0.3978406207176863 chrY 59373566 1339723 0.02256430075296471 1.1130453309950925