BamQC report ----------------------------------- >>>>>>> Input bam file = ERR9714194.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 = 88,876 number of mapped reads = 13,975 (15.72%) number of supplementary alignments = 574 (0.65%) number of secondary alignments = 0 number of mapped bases = 1,370,710 bp number of sequenced bases = 1,365,442 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 13,209 duplication rate = 31.27% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 9.9079 >>>>>>> ACTG content number of A's = 74,740 bp (5.47%) number of C's = 31,252 bp (2.29%) number of T's = 42,211 bp (3.09%) number of G's = 1,217,231 bp (89.15%) number of N's = 8 bp (0%) GC percentage = 91.43% >>>>>>> Mismatches and indels general error rate = 0.0364 number of mismatches = 35,428 number of insertions = 1,840 mapped reads with insertion percentage = 8.65% number of deletions = 992 mapped reads with deletion percentage = 6.77% homopolymer indels = 65.85% >>>>>>> Coverage mean coverageData = 0.0004X std coverageData = 1.4747X 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 27282 1.0945609640025731E-4 0.2703469120678764 chr2 243199373 1201460 0.0049402265523110535 5.246832739676179 chr3 198022430 7581 3.8283541919973406E-5 0.028721249299120725 chr4 191154276 3079 1.610740844740507E-5 0.0064335365429089185 chr5 180915260 3162 1.747779595817401E-5 0.005067020948380681 chr6 171115067 2715 1.5866516301571503E-5 0.00718673809572297 chr7 159138663 3975 2.497821663865556E-5 0.020980503688574476 chr8 146364022 2951 2.0162058678600676E-5 0.009035403141387816 chr9 141213431 1885 1.3348588633895595E-5 0.006199275052305419 chr10 135534747 25878 1.9093258793628765E-4 0.34980226742490433 chr11 135006516 1980 1.4665958789722417E-5 0.005445200258190138 chr12 133851895 5943 4.4399819666355866E-5 0.04329198970973273 chr13 115169878 716 6.216903346897702E-6 0.00279854793258584 chr14 107349540 2096 1.952500215650668E-5 0.014855635301666226 chr15 102531392 1683 1.641448503888448E-5 0.006324336974744177 chr16 90354753 1833 2.0286702571141996E-5 0.005630980188537281 chr17 81195210 3333 4.1049219529083056E-5 0.03998206503064368 chr18 78077248 876 1.121965774203517E-5 0.004039436544052548 chr19 59128983 962 1.626951709959226E-5 0.006198726330476736 chr20 63025520 729 1.1566743122468486E-5 0.004020935219582236 chr21 48129895 1900 3.9476504156096746E-5 0.01595362453574646 chr22 51304566 226 4.405066013032836E-6 0.002369285978017419 chrMT 16571 726 0.0438114778830487 0.4106329841268749 chrX 155270560 66506 4.2832330868131086E-4 0.10522862917406321 chrY 59373566 1233 2.0766817340902178E-5 0.010139342469176228