BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751214.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 = 4,645,166 number of mapped reads = 3,197,888 (68.84%) number of supplementary alignments = 177,154 (3.81%) number of secondary alignments = 0 number of mapped bases = 314,535,858 bp number of sequenced bases = 314,428,459 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 125,024 duplication rate = 1.8% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 50.9578 >>>>>>> ACTG content number of A's = 93,338,925 bp (29.69%) number of C's = 63,905,395 bp (20.32%) number of T's = 93,834,221 bp (29.84%) number of G's = 63,347,693 bp (20.15%) number of N's = 2,225 bp (0%) GC percentage = 40.47% >>>>>>> Mismatches and indels general error rate = 0.0048 number of mismatches = 1,295,882 number of insertions = 159,000 mapped reads with insertion percentage = 4.81% number of deletions = 48,085 mapped reads with deletion percentage = 1.47% homopolymer indels = 51.14% >>>>>>> Coverage mean coverageData = 0.1016X std coverageData = 1.5214X There is a 8.09% of reference with a coverageData >= 1X There is a 1.37% of reference with a coverageData >= 2X There is a 0.28% 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 29205628 0.11717374216692523 4.517287126166022 chr2 243199373 24055655 0.09891331010956184 0.5621645414054088 chr3 198022430 20181413 0.10191478308795625 0.446128309354359 chr4 191154276 17857909 0.09342144666436862 0.43336611728987917 chr5 180915260 27123210 0.14992217903564353 0.49469212346647196 chr6 171115067 15840016 0.09256938198200863 0.6008072873020567 chr7 159138663 18293174 0.11495116054858397 0.8605721730728005 chr8 146364022 21449415 0.14654841201343866 1.0009089195745997 chr9 141213431 13193139 0.09342694180414043 0.6574509961827344 chr10 135534747 13733404 0.10132755108179012 1.7785156783451226 chr11 135006516 13836482 0.10248751252865454 0.5939898941328104 chr12 133851895 13693643 0.10230443879782203 0.3938164067401328 chr13 115169878 12334220 0.10709588491532482 0.38152348860521 chr14 107349540 7994642 0.07447299727600137 0.3472851773141784 chr15 102531392 9609104 0.09371865350272432 0.35693383996341355 chr16 90354753 8451230 0.09353387308800457 0.6930912108042372 chr17 81195210 8373066 0.10312265957560797 0.5591044050033909 chr18 78077248 5530611 0.07083511703691196 1.5664759146309657 chr19 59128983 5912569 0.09999443081914668 3.1627673505224148 chr20 63025520 5617938 0.08913751128114453 0.3651715705388519 chr21 48129895 3481643 0.07233847071555008 0.3674135310613467 chr22 51304566 2627386 0.05121154323769155 0.26580265429874184 chrMT 16571 240523 14.51469434554342 14.275767616973681 chrX 155270560 14751370 0.09500429443933223 0.4232589600419766 chrY 59373566 1148468 0.019343086113439774 0.91124279042118