BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714054.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/ERP137498/ERP137498.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 = 485,008 number of mapped reads = 78,941 (16.28%) number of supplementary alignments = 1,490 (0.31%) number of secondary alignments = 0 number of mapped bases = 7,873,978 bp number of sequenced bases = 7,860,249 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 78,000 duplication rate = 31.84% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 7.7884 >>>>>>> ACTG content number of A's = 177,890 bp (2.26%) number of C's = 65,760 bp (0.84%) number of T's = 87,666 bp (1.12%) number of G's = 7,528,707 bp (95.78%) number of N's = 226 bp (0%) GC percentage = 96.62% >>>>>>> Mismatches and indels general error rate = 0.0311 number of mismatches = 188,910 number of insertions = 8,305 mapped reads with insertion percentage = 7.05% number of deletions = 3,339 mapped reads with deletion percentage = 4.07% homopolymer indels = 62.25% >>>>>>> Coverage mean coverageData = 0.0025X std coverageData = 9.709X There is a 0% of reference with a coverageData >= 1X There is a 0% of reference with a coverageData >= 2X There is a 0% of reference with a coverageData >= 3X There is a 0% of reference with a coverageData >= 4X There is a 0% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% 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 80101 3.2136730363452136E-4 0.5551393506694177 chr2 243199373 7542326 0.031012933573640423 34.630975518186176 chr3 198022430 8626 4.356072188387952E-5 0.016434376104857325 chr4 191154276 6283 3.2868738965588195E-5 0.010607326270801078 chr5 180915260 7207 3.983633000333969E-5 0.010881774307274932 chr6 171115067 11261 6.580951752191407E-5 0.03067276876272578 chr7 159138663 13987 8.789190342764159E-5 0.10594724889649564 chr8 146364022 5932 4.052908576125354E-5 0.01804962113982643 chr9 141213431 7177 5.082377752014254E-5 0.01761274530049225 chr10 135534747 46718 3.446938960973602E-4 0.6452561995322774 chr11 135006516 5463 4.046471356982503E-5 0.030459655612019004 chr12 133851895 10559 7.888569676208171E-5 0.05751509326647478 chr13 115169878 4512 3.917691047653971E-5 0.02208107495015072 chr14 107349540 12851 1.1971173793571914E-4 0.12809677765025776 chr15 102531392 3433 3.348242848395153E-5 0.017921727480481348 chr16 90354753 6155 6.812037879180523E-5 0.021152319928009904 chr17 81195210 11594 1.4279167453351004E-4 0.14588697172700277 chr18 78077248 5803 7.432382862674669E-5 0.07794419963773663 chr19 59128983 9542 1.613760209608205E-4 0.04132615553186253 chr20 63025520 2437 3.866687652874582E-5 0.013734495887267271 chr21 48129895 801 1.6642463067912365E-5 0.006140861049913903 chr22 51304566 3444 6.71285280924119E-5 0.02473681145017622 chrMT 16571 151 0.00911230462856798 0.09471021029435936 chrX 155270560 66026 4.2523193063772035E-4 0.10362301990912363 chrY 59373566 1589 2.6762751625866634E-5 0.009828077090612198