BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525159.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 = 709,077 number of mapped reads = 635,594 (89.64%) number of supplementary alignments = 2,279 (0.32%) number of secondary alignments = 0 number of mapped bases = 36,484,201 bp number of sequenced bases = 36,474,577 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 11,348 duplication rate = 1.32% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 45.4576 >>>>>>> ACTG content number of A's = 9,126,108 bp (25.02%) number of C's = 6,793,878 bp (18.63%) number of T's = 11,669,495 bp (31.99%) number of G's = 8,884,077 bp (24.36%) number of N's = 1,019 bp (0%) GC percentage = 42.98% >>>>>>> Mismatches and indels general error rate = 0.0049 number of mismatches = 173,290 number of insertions = 2,405 mapped reads with insertion percentage = 0.38% number of deletions = 5,729 mapped reads with deletion percentage = 0.89% homopolymer indels = 42.48% >>>>>>> Coverage mean coverageData = 0.0118X std coverageData = 0.1337X There is a 1.12% of reference with a coverageData >= 1X There is a 0.04% 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 2904890 0.011654494533837089 0.20641522196515819 chr2 243199373 3095401 0.012727832978418082 0.14000714880176127 chr3 198022430 2444796 0.01234605594931847 0.11516516351023136 chr4 191154276 2430359 0.012714123120112678 0.12209959757613237 chr5 180915260 2205080 0.012188468789199982 0.11484521070054288 chr6 171115067 2181041 0.012746048832742473 0.12068196611972348 chr7 159138663 1950165 0.012254501597766974 0.1441501426971204 chr8 146364022 1850107 0.01264044930385966 0.14153401127443904 chr9 141213431 1597145 0.011310149386569327 0.13023244903906261 chr10 135534747 1733566 0.012790565064470147 0.1352486467638014 chr11 135006516 1675056 0.012407223366907713 0.1294488221561972 chr12 133851895 1650155 0.012328215450367736 0.11654304471436977 chr13 115169878 1190824 0.010339717473695683 0.10528257087317898 chr14 107349540 1090097 0.010154649940744971 0.10773852830742293 chr15 102531392 1042296 0.010165628103439774 0.10447539347747155 chr16 90354753 1013850 0.011220771086607918 0.11166123285331134 chr17 81195210 978776 0.01205460272841218 0.11713680470165706 chr18 78077248 996533 0.012763423731328235 0.18621779766338284 chr19 59128983 646192 0.010928515377983079 0.15108753338998732 chr20 63025520 747498 0.011860243279230381 0.11492742588152374 chr21 48129895 465269 0.00966694400642262 0.10665468652440005 chr22 51304566 405456 0.007902922324691334 0.09209181374769342 chrMT 16571 3749 0.2262386096192143 0.46727975228054197 chrX 155270560 2076379 0.013372650939109127 0.12583637313589874 chrY 59373566 109521 0.0018446087607404279 0.05741195625936482