BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714229.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 = 257,194 number of mapped reads = 36,756 (14.29%) number of supplementary alignments = 912 (0.35%) number of secondary alignments = 0 number of mapped bases = 3,777,379 bp number of sequenced bases = 3,767,219 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 35,673 duplication rate = 30.73% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 12.4315 >>>>>>> ACTG content number of A's = 119,854 bp (3.18%) number of C's = 50,942 bp (1.35%) number of T's = 65,788 bp (1.75%) number of G's = 3,530,566 bp (93.72%) number of N's = 69 bp (0%) GC percentage = 95.07% >>>>>>> Mismatches and indels general error rate = 0.0333 number of mismatches = 95,055 number of insertions = 4,293 mapped reads with insertion percentage = 7.6% number of deletions = 1,991 mapped reads with deletion percentage = 5.15% homopolymer indels = 63.62% >>>>>>> Coverage mean coverageData = 0.0012X std coverageData = 4.4959X 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 28770 1.1542599125560454E-4 0.24649838173556496 chr2 243199373 3531605 0.014521439576244303 16.035572039089217 chr3 198022430 4929 2.4891119657505464E-5 0.008075532442828404 chr4 191154276 5163 2.7009597211416813E-5 0.007655822733376528 chr5 180915260 4058 2.2430390891293526E-5 0.005659600565764773 chr6 171115067 3730 2.1798197349856983E-5 0.008249787784982247 chr7 159138663 12435 7.813940223941683E-5 0.05570969711593964 chr8 146364022 10273 7.018801382760581E-5 0.045856447275984036 chr9 141213431 3067 2.171889726268318E-5 0.007029012016874693 chr10 135534747 26265 1.937879442826569E-4 0.3548997300729622 chr11 135006516 3797 2.8124568446755562E-5 0.015186590407926264 chr12 133851895 9808 7.327501788450585E-5 0.05450100697845404 chr13 115169878 1675 1.4543733388343088E-5 0.0047394367394778154 chr14 107349540 4733 4.408961603375292E-5 0.038980664750728256 chr15 102531392 3173 3.0946619743541565E-5 0.010315777313981957 chr16 90354753 3896 4.311892701427671E-5 0.020268775040726467 chr17 81195210 5267 6.486835861376552E-5 0.06252441728933958 chr18 78077248 4373 5.600863391086735E-5 0.02784983561860517 chr19 59128983 2654 4.4884925553344964E-5 0.01574366204233153 chr20 63025520 2437 3.866687652874582E-5 0.013084303481008542 chr21 48129895 659 1.3692113809930398E-5 0.004360145163099227 chr22 51304566 641 1.2494014665283398E-5 0.003861450173094085 chrMT 16571 3483 0.21018647033975016 1.6617980536203056 chrX 155270560 99473 6.406430169376604E-4 0.1274496138705965 chrY 59373566 1015 1.7095149716963268E-5 0.0077018852058419705