BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524736.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.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 = 886,683 number of mapped reads = 763,901 (86.15%) number of supplementary alignments = 9,480 (1.07%) number of secondary alignments = 0 number of mapped bases = 43,619,867 bp number of sequenced bases = 43,607,800 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 16,987 duplication rate = 1.21% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 39.837 >>>>>>> ACTG content number of A's = 11,312,143 bp (25.94%) number of C's = 8,109,484 bp (18.6%) number of T's = 13,253,118 bp (30.39%) number of G's = 10,926,974 bp (25.06%) number of N's = 6,081 bp (0.01%) GC percentage = 43.65% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 220,137 number of insertions = 4,170 mapped reads with insertion percentage = 0.54% number of deletions = 7,238 mapped reads with deletion percentage = 0.94% homopolymer indels = 37.68% >>>>>>> Coverage mean coverageData = 0.0141X std coverageData = 0.1765X There is a 1.33% of reference with a coverageData >= 1X There is a 0.04% of reference with a coverageData >= 2X There is a 0.01% 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 3507986 0.014074131434159998 0.2887498403347892 chr2 243199373 3625370 0.014906987445234903 0.23198715348809976 chr3 198022430 2821813 0.014249966531569177 0.12573400907128118 chr4 191154276 2763099 0.0144548113587582 0.14009229669853668 chr5 180915260 2567182 0.01418996938124512 0.12420296855482212 chr6 171115067 2431130 0.014207574134894855 0.13125517943952172 chr7 159138663 2429946 0.015269362920310572 0.24203504024581063 chr8 146364022 2177635 0.014878212351939878 0.1691465267558458 chr9 141213431 1852559 0.013118858361284345 0.1576150368334636 chr10 135534747 2154982 0.015899848914758367 0.20337290149190373 chr11 135006516 1967128 0.014570615243489432 0.1545319816606131 chr12 133851895 1987233 0.014846506282185994 0.12849816571500508 chr13 115169878 1296976 0.011261416809002785 0.1109091598565239 chr14 107349540 1308094 0.012185371264748782 0.1203280877609226 chr15 102531392 1246236 0.012154677466975187 0.11685196313830083 chr16 90354753 1318213 0.014589304449761486 0.13542421630577878 chr17 81195210 1279624 0.015759845931798192 0.1365335496590091 chr18 78077248 1125656 0.014417208967201302 0.2571602030942742 chr19 59128983 1070833 0.01811012037869821 0.22300074555422333 chr20 63025520 916206 0.01453706371641202 0.12912157010737926 chr21 48129895 555914 0.011550284911280193 0.12233413172477439 chr22 51304566 556889 0.010854569942176297 0.10856220998690688 chrMT 16571 23221 1.401303481986603 1.412102624188163 chrX 155270560 2469108 0.015901971371778397 0.1456157229522848 chrY 59373566 166834 0.002809903653083596 0.08666863377348562