BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751198.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 = 5,969,864 number of mapped reads = 5,928,805 (99.31%) number of supplementary alignments = 135,261 (2.27%) number of secondary alignments = 0 number of mapped bases = 869,520,075 bp number of sequenced bases = 869,261,497 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 849,533 duplication rate = 14.01% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 52.9149 >>>>>>> ACTG content number of A's = 246,938,120 bp (28.41%) number of C's = 187,541,491 bp (21.57%) number of T's = 248,108,109 bp (28.54%) number of G's = 186,665,816 bp (21.47%) number of N's = 7,961 bp (0%) GC percentage = 43.05% >>>>>>> Mismatches and indels general error rate = 0.0074 number of mismatches = 6,228,361 number of insertions = 107,270 mapped reads with insertion percentage = 1.77% number of deletions = 99,860 mapped reads with deletion percentage = 1.64% homopolymer indels = 48.24% >>>>>>> Coverage mean coverageData = 0.2809X std coverageData = 0.8212X There is a 17.43% of reference with a coverageData >= 1X There is a 6.29% of reference with a coverageData >= 2X There is a 2.36% of reference with a coverageData >= 3X There is a 0.94% of reference with a coverageData >= 4X There is a 0.41% of reference with a coverageData >= 5X There is a 0.2% of reference with a coverageData >= 6X There is a 0.1% of reference with a coverageData >= 7X There is a 0.06% of reference with a coverageData >= 8X There is a 0.04% of reference with a coverageData >= 9X There is a 0.03% of reference with a coverageData >= 10X There is a 0.02% of reference with a coverageData >= 11X There is a 0.02% of reference with a coverageData >= 12X There is a 0.02% 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 0.01% of reference with a coverageData >= 16X There is a 0.01% of reference with a coverageData >= 17X There is a 0.01% of reference with a coverageData >= 18X There is a 0.01% of reference with a coverageData >= 19X There is a 0.01% of reference with a coverageData >= 20X There is a 0.01% of reference with a coverageData >= 21X There is a 0.01% 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 102734891 0.41217506535319726 1.0618506069090339 chr2 243199373 61434663 0.25261028530694446 0.8089379017174181 chr3 198022430 53199627 0.2686545509011277 0.7199106330240888 chr4 191154276 36715039 0.1920701946526166 0.6056219542960721 chr5 180915260 71823298 0.39699966713697893 0.9638331474962695 chr6 171115067 47864398 0.27972053448689005 0.8114888797649278 chr7 159138663 50587832 0.3178852394907955 0.8163465592745226 chr8 146364022 42910179 0.29317436357413024 0.928795475806219 chr9 141213431 38216344 0.27062825206760965 0.7542773031353351 chr10 135534747 30830292 0.22747149850805418 0.7020219996107474 chr11 135006516 40221726 0.2979243312967205 0.7691709387827047 chr12 133851895 47637018 0.3558934895916117 0.8638581112379934 chr13 115169878 24352971 0.21145260742570204 0.6995275503012423 chr14 107349540 19803239 0.1844743722236723 0.6463041973763638 chr15 102531392 23274420 0.2269979910152785 0.6936751499575273 chr16 90354753 27714582 0.3067307593658078 0.9138564805509686 chr17 81195210 30962958 0.38133971203473704 1.0303503613678635 chr18 78077248 16855260 0.21587927894179876 0.7064192534975842 chr19 59128983 21764235 0.3680806585156386 0.9126330061598449 chr20 63025520 18441959 0.29261097726762114 0.7717791209185947 chr21 48129895 11584941 0.2407015639655977 0.7189578422584756 chr22 51304566 13226689 0.2578072485790056 0.7353606461576412 chrMT 16571 810093 48.8861867117253 23.960035683247156 chrX 155270560 35515303 0.22873172480346565 0.6627825357978108 chrY 59373566 1038118 0.01748451491022116 0.39774467350732123