BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751201.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 = 6,795,459 number of mapped reads = 6,601,091 (97.14%) number of supplementary alignments = 91,429 (1.35%) number of secondary alignments = 0 number of mapped bases = 954,957,689 bp number of sequenced bases = 954,676,984 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,036,886 duplication rate = 15.24% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 52.8445 >>>>>>> ACTG content number of A's = 269,706,564 bp (28.25%) number of C's = 208,295,780 bp (21.82%) number of T's = 272,554,979 bp (28.55%) number of G's = 204,110,265 bp (21.38%) number of N's = 9,396 bp (0%) GC percentage = 43.2% >>>>>>> Mismatches and indels general error rate = 0.0072 number of mismatches = 6,612,685 number of insertions = 113,697 mapped reads with insertion percentage = 1.68% number of deletions = 108,472 mapped reads with deletion percentage = 1.6% homopolymer indels = 47.41% >>>>>>> Coverage mean coverageData = 0.3085X std coverageData = 1.3436X There is a 18.75% of reference with a coverageData >= 1X There is a 7.04% of reference with a coverageData >= 2X There is a 2.73% of reference with a coverageData >= 3X There is a 1.12% of reference with a coverageData >= 4X There is a 0.48% of reference with a coverageData >= 5X There is a 0.22% of reference with a coverageData >= 6X There is a 0.11% of reference with a coverageData >= 7X There is a 0.06% of reference with a coverageData >= 8X There is a 0.03% of reference with a coverageData >= 9X There is a 0.02% of reference with a coverageData >= 10X There is a 0.01% of reference with a coverageData >= 11X There is a 0.01% of reference with a coverageData >= 12X There is a 0.01% 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% 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 112220657 0.45023220624192545 3.2138801790152045 chr2 243199373 71778995 0.2951446548342869 0.9060243539299726 chr3 198022430 62713384 0.3166983861373684 0.7839586211137216 chr4 191154276 41778298 0.21855800913394163 0.6873245233851903 chr5 180915260 73556638 0.4065806168036903 0.9091719269964612 chr6 171115067 53808830 0.31445991836592624 1.1113655434893477 chr7 159138663 53835076 0.3382903625374809 0.9847467485489202 chr8 146364022 47593855 0.32517455006804885 0.8103877995812466 chr9 141213431 43646414 0.3090811808120433 0.9816577128855659 chr10 135534747 47071426 0.34730153736886377 1.7371524103193026 chr11 135006516 41322479 0.30607766368846967 1.001488004058121 chr12 133851895 50207980 0.37510100249234424 0.9062800901121462 chr13 115169878 26577691 0.23076946386971078 0.6715673166664807 chr14 107349540 19927257 0.1856296449896292 0.6000528252536814 chr15 102531392 25234325 0.24611316112825232 0.7289241206266027 chr16 90354753 28298572 0.3131940607485253 0.814073232525183 chr17 81195210 29425579 0.3624053561780307 1.1401804835406009 chr18 78077248 18632655 0.23864384922993187 1.072277443500988 chr19 59128983 21055182 0.3560890265946228 2.1389092795891473 chr20 63025520 19775919 0.3137763718569875 0.8356660104158308 chr21 48129895 13130642 0.2728167597290624 0.8026509392763091 chr22 51304566 13694281 0.26692129117708546 0.7836278875709685 chrMT 16571 2074632 125.19654818659103 56.71803079867254 chrX 155270560 36498597 0.2350645028909537 0.7192312609022841 chrY 59373566 1098325 0.018498552032397718 0.466177298633664