BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524765.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 = 1,183,639 number of mapped reads = 1,066,296 (90.09%) number of supplementary alignments = 3,637 (0.31%) number of secondary alignments = 0 number of mapped bases = 60,602,880 bp number of sequenced bases = 60,583,564 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 32,646 duplication rate = 2.28% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.3097 >>>>>>> ACTG content number of A's = 14,994,932 bp (24.75%) number of C's = 11,645,212 bp (19.22%) number of T's = 19,216,339 bp (31.72%) number of G's = 14,719,530 bp (24.3%) number of N's = 7,551 bp (0.01%) GC percentage = 43.52% >>>>>>> Mismatches and indels general error rate = 0.0053 number of mismatches = 314,119 number of insertions = 4,098 mapped reads with insertion percentage = 0.38% number of deletions = 12,054 mapped reads with deletion percentage = 1.12% homopolymer indels = 42.54% >>>>>>> Coverage mean coverageData = 0.0196X std coverageData = 0.1935X There is a 1.8% of reference with a coverageData >= 1X There is a 0.12% of reference with a coverageData >= 2X There is a 0.01% of reference with a coverageData >= 3X There is a 0.01% 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 4838052 0.019410390957461245 0.25234472368562916 chr2 243199373 5106644 0.02099776795065997 0.30341266942644496 chr3 198022430 3972929 0.020063025183561276 0.15263595550035866 chr4 191154276 3895139 0.020376938886786922 0.16964345607683892 chr5 180915260 3621781 0.020019212309674708 0.15149266129155264 chr6 171115067 3446314 0.02014033048299598 0.16228504522460047 chr7 159138663 3313666 0.020822507475760307 0.23067372951003937 chr8 146364022 3002815 0.020516073273799486 0.1837304831382395 chr9 141213431 2586232 0.018314348583457336 0.1701401180871905 chr10 135534747 2947866 0.02174989119210884 0.22262264754200337 chr11 135006516 2707772 0.020056602305032447 0.17256419246625984 chr12 133851895 2776287 0.020741484459372055 0.156355371451698 chr13 115169878 1912343 0.016604541336754736 0.1381355225213874 chr14 107349540 1826248 0.017012164188127867 0.14252762921161963 chr15 102531392 1749386 0.017061955035195465 0.14133595411915667 chr16 90354753 1841911 0.020385324942452113 0.1664050830939728 chr17 81195210 1713965 0.021109188583907843 0.1606878836071641 chr18 78077248 1598312 0.0204709059417668 0.2548381458178556 chr19 59128983 1323120 0.022376843518516123 0.21272767268758144 chr20 63025520 1301997 0.020658250816494653 0.1572900441752875 chr21 48129895 788367 0.016379985869489223 0.14711411590002052 chr22 51304566 759740 0.014808428551953835 0.1311808770699961 chrMT 16571 7912 0.4774606239816547 0.7524558606075459 chrX 155270560 3362719 0.021657157673676194 0.16851479853223383 chrY 59373566 201363 0.0033914587511890393 0.10150313021492142