BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525228.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 = 546,565 number of mapped reads = 498,312 (91.17%) number of supplementary alignments = 1,975 (0.36%) number of secondary alignments = 0 number of mapped bases = 31,821,383 bp number of sequenced bases = 31,809,612 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 7,770 duplication rate = 1.1% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.9872 >>>>>>> ACTG content number of A's = 8,650,250 bp (27.19%) number of C's = 6,828,220 bp (21.47%) number of T's = 9,633,185 bp (30.28%) number of G's = 6,697,152 bp (21.05%) number of N's = 805 bp (0%) GC percentage = 42.52% >>>>>>> Mismatches and indels general error rate = 0.005 number of mismatches = 153,589 number of insertions = 2,378 mapped reads with insertion percentage = 0.47% number of deletions = 7,148 mapped reads with deletion percentage = 1.42% homopolymer indels = 43.07% >>>>>>> Coverage mean coverageData = 0.0103X std coverageData = 0.1316X There is a 0.97% of reference with a coverageData >= 1X There is a 0.03% 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 2668177 0.010704795796677272 0.22081999137826758 chr2 243199373 2652351 0.010906076636965672 0.13315923185390827 chr3 198022430 2091718 0.01056303571267154 0.10597211030466144 chr4 191154276 2005828 0.010493241595076848 0.11044997854249124 chr5 180915260 1897300 0.01048723031987462 0.10562078034142189 chr6 171115067 1831275 0.010702009075565509 0.11234941987831135 chr7 159138663 1754924 0.01102764071858515 0.16851713097126297 chr8 146364022 1596599 0.010908411631377552 0.12675153307457396 chr9 141213431 1343811 0.009516169888967573 0.11655473849454112 chr10 135534747 1553812 0.011464307377944934 0.13987201446395486 chr11 135006516 1429398 0.010587622304096789 0.11616447566297862 chr12 133851895 1439068 0.010751196312909876 0.10718297828045564 chr13 115169878 988365 0.008581801224101323 0.09531868810691234 chr14 107349540 946765 0.008819460241748591 0.09864266328800468 chr15 102531392 923182 0.00900389609457365 0.09778438532670583 chr16 90354753 970050 0.010736015182289303 0.11239915429738528 chr17 81195210 861238 0.010607005019138444 0.10915405272242898 chr18 78077248 862371 0.01104509984778152 0.18345390285852028 chr19 59128983 665088 0.011248087930076525 0.1749692334956083 chr20 63025520 684327 0.010857935007914255 0.10811207425504288 chr21 48129895 426758 0.008866796821393439 0.10527634579903818 chr22 51304566 391877 0.007638248026501189 0.08996814920884762 chrMT 16571 16953 1.023052320318629 1.1167818244245225 chrX 155270560 1715628 0.011049280687852225 0.11173627505591457 chrY 59373566 104520 0.0017603793580463064 0.06950060924781438