BamQC report ----------------------------------- >>>>>>> Input bam file = SRR8751197.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 = 7,783,185 number of mapped reads = 7,686,490 (98.76%) number of supplementary alignments = 254,660 (3.27%) number of secondary alignments = 0 number of mapped bases = 1,117,932,674 bp number of sequenced bases = 1,117,584,192 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 1,163,963 duplication rate = 13.94% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 52.5272 >>>>>>> ACTG content number of A's = 321,633,930 bp (28.78%) number of C's = 237,185,313 bp (21.22%) number of T's = 323,437,284 bp (28.94%) number of G's = 235,317,426 bp (21.06%) number of N's = 10,239 bp (0%) GC percentage = 42.28% >>>>>>> Mismatches and indels general error rate = 0.0076 number of mismatches = 8,086,191 number of insertions = 239,473 mapped reads with insertion percentage = 3.02% number of deletions = 137,669 mapped reads with deletion percentage = 1.74% homopolymer indels = 49.56% >>>>>>> Coverage mean coverageData = 0.3611X std coverageData = 2.1134X There is a 20.04% of reference with a coverageData >= 1X There is a 8.1% of reference with a coverageData >= 2X There is a 3.59% of reference with a coverageData >= 3X There is a 1.73% of reference with a coverageData >= 4X There is a 0.89% of reference with a coverageData >= 5X There is a 0.49% of reference with a coverageData >= 6X There is a 0.28% of reference with a coverageData >= 7X There is a 0.17% of reference with a coverageData >= 8X There is a 0.11% of reference with a coverageData >= 9X There is a 0.08% of reference with a coverageData >= 10X There is a 0.05% of reference with a coverageData >= 11X There is a 0.04% of reference with a coverageData >= 12X There is a 0.03% of reference with a coverageData >= 13X There is a 0.02% of reference with a coverageData >= 14X There is a 0.02% of reference with a coverageData >= 15X There is a 0.02% of reference with a coverageData >= 16X There is a 0.01% of reference with a coverageData >= 17X There is a 0.01% of reference with a coverageData >= 18X There is a 0.01% of reference with a coverageData >= 19X There is a 0.01% of reference with a coverageData >= 20X There is a 0.01% of reference with a coverageData >= 21X There is a 0.01% of reference with a coverageData >= 22X There is a 0.01% of reference with a coverageData >= 23X There is a 0.01% of reference with a coverageData >= 24X There is a 0.01% of reference with a coverageData >= 25X There is a 0.01% of reference with a coverageData >= 26X There is a 0.01% of reference with a coverageData >= 27X There is a 0.01% 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 136299257 0.5468361781935139 5.634240207829463 chr2 243199373 83639351 0.3439126917485926 1.1275938653430106 chr3 198022430 63480323 0.3205713766869743 0.8830422584966103 chr4 191154276 49037015 0.2565310911485966 0.976327087407081 chr5 180915260 90040567 0.4976947052448754 1.101664809892409 chr6 171115067 65593085 0.3833273489586981 1.4546841561702109 chr7 159138663 63366419 0.39818368337052074 1.5240819037845776 chr8 146364022 54366426 0.3714466523747209 1.0118951101813622 chr9 141213431 49312919 0.34920841913401285 1.3135129421734326 chr10 135534747 56192883 0.414601305154611 3.4726007606410794 chr11 135006516 49931878 0.36984791163709463 1.3040670911794399 chr12 133851895 60546346 0.4523383550154445 1.0621369046288247 chr13 115169878 33364827 0.28970098414100953 0.8407946986082521 chr14 107349540 23794674 0.22165604063138045 0.752752183667819 chr15 102531392 29022610 0.28306072349042133 0.8528653870075338 chr16 90354753 32665515 0.36152514301046235 1.2423537428562386 chr17 81195210 34658029 0.42684819707960603 1.5206383351755557 chr18 78077248 24464645 0.3133389768041005 1.6515409364179023 chr19 59128983 22778515 0.385234344382348 3.7063264922798598 chr20 63025520 22214486 0.35246811133014055 0.958092268819054 chr21 48129895 10102262 0.20989578306788328 0.7721924004897114 chr22 51304566 14244799 0.27765168113886785 0.852809323759319 chrMT 16571 693902 41.87447951240118 19.050115200535217 chrX 155270560 46715176 0.30086306122680306 0.9270745208295428 chrY 59373566 1406765 0.02369345644491018 0.552398911232131