BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714212.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 = 146,024 number of mapped reads = 10,429 (7.14%) number of supplementary alignments = 279 (0.19%) number of secondary alignments = 0 number of mapped bases = 969,213 bp number of sequenced bases = 954,063 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 8,687 duplication rate = 38.5% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 22.4411 >>>>>>> ACTG content number of A's = 168,936 bp (17.71%) number of C's = 114,678 bp (12.02%) number of T's = 149,380 bp (15.66%) number of G's = 521,052 bp (54.61%) number of N's = 17 bp (0%) GC percentage = 66.63% >>>>>>> Mismatches and indels general error rate = 0.0374 number of mismatches = 31,077 number of insertions = 962 mapped reads with insertion percentage = 7.55% number of deletions = 1,738 mapped reads with deletion percentage = 16.19% homopolymer indels = 33.44% >>>>>>> Coverage mean coverageData = 0.0003X std coverageData = 0.4712X 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 19553 7.844714657701896E-5 0.03371618904569994 chr2 243199373 438017 0.0018010613867824403 1.6546192564189361 chr3 198022430 28883 1.45857214255981E-4 0.056182201718211575 chr4 191154276 9331 4.88139747394403E-5 0.017045477818895163 chr5 180915260 23876 1.3197338908835E-4 0.09986189281629836 chr6 171115067 35458 2.0721728730059756E-4 0.11854892978054993 chr7 159138663 49866 3.133493712964021E-4 0.12735883553902538 chr8 146364022 25420 1.7367656103355782E-4 0.06185323828296576 chr9 141213431 15800 1.1188737422575619E-4 0.05138388018923416 chr10 135534747 22214 1.638989299179494E-4 0.09364547155366064 chr11 135006516 25490 1.888057017929416E-4 0.08201442721777685 chr12 133851895 40824 3.0499381424521486E-4 0.12133762100612003 chr13 115169878 4045 3.512203077961062E-5 0.013964782762677624 chr14 107349540 3745 3.488603677295683E-5 0.02008344400076093 chr15 102531392 7445 7.261190797058525E-5 0.021470342579857596 chr16 90354753 9457 1.0466521888450074E-4 0.07276200570393138 chr17 81195210 9059 1.1157062097628666E-4 0.043301984546128804 chr18 78077248 6939 8.8873521771669E-5 0.04339870179557941 chr19 59128983 1317 2.2273340977300423E-5 0.005604054340849972 chr20 63025520 18256 2.896604423097183E-4 0.11073848509054096 chr21 48129895 899 1.8678619598068934E-5 0.005505765381117583 chr22 51304566 3311 6.45361662351846E-5 0.021606376979966067 chrMT 16571 592 0.03572506185504797 0.30285609789860357 chrX 155270560 163161 0.0010508173603547253 0.21011182041214208 chrY 59373566 6255 1.0534991278778843E-4 0.043312344745611464