BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10525050.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 = 596,491 number of mapped reads = 551,369 (92.44%) number of supplementary alignments = 1,394 (0.23%) number of secondary alignments = 0 number of mapped bases = 32,629,202 bp number of sequenced bases = 32,618,708 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 38,982 duplication rate = 5.89% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 46.3524 >>>>>>> ACTG content number of A's = 8,492,348 bp (26.04%) number of C's = 6,716,261 bp (20.59%) number of T's = 9,909,395 bp (30.38%) number of G's = 7,497,155 bp (22.98%) number of N's = 3,549 bp (0.01%) GC percentage = 43.57% >>>>>>> Mismatches and indels general error rate = 0.0051 number of mismatches = 160,505 number of insertions = 2,782 mapped reads with insertion percentage = 0.5% number of deletions = 6,565 mapped reads with deletion percentage = 1.18% homopolymer indels = 44.05% >>>>>>> Coverage mean coverageData = 0.0105X std coverageData = 0.1436X There is a 0.91% of reference with a coverageData >= 1X There is a 0.11% of reference with a coverageData >= 2X There is a 0.02% 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 2620173 0.010512202495174526 0.2049941531498913 chr2 243199373 2762957 0.011360872217380264 0.17036131521440095 chr3 198022430 2140847 0.010811133870036843 0.1171650276137461 chr4 191154276 2142436 0.011207889485035637 0.14465128164102983 chr5 180915260 1972538 0.010903104580564404 0.11764289676245396 chr6 171115067 1826714 0.010675354496983015 0.11884651948086547 chr7 159138663 1780656 0.011189336182873422 0.1436468145514408 chr8 146364022 1680556 0.011482029374677884 0.19452866566492283 chr9 141213431 1366092 0.009673952331064033 0.12093377163482434 chr10 135534747 1644042 0.012130040719373607 0.17943735504861946 chr11 135006516 1475972 0.010932598245850593 0.1256503672380628 chr12 133851895 1443335 0.01078307483058047 0.11835337660871581 chr13 115169878 996570 0.008653043810639445 0.10413856937171978 chr14 107349540 983621 0.009162787283485333 0.10808819764710491 chr15 102531392 946163 0.009228032327894271 0.10754365541010835 chr16 90354753 957346 0.010595413835064106 0.11928243423584448 chr17 81195210 875289 0.010780057099427417 0.1212393222455239 chr18 78077248 830929 0.010642396104944683 0.16523381044556815 chr19 59128983 680291 0.01150520380166187 0.1614819099920276 chr20 63025520 715294 0.011349275658495162 0.12360579025153381 chr21 48129895 450788 0.00936607071343081 0.13094569665026343 chr22 51304566 409053 0.007973033043491685 0.10119969704775501 chrMT 16571 7522 0.45392553255687645 0.7723648445879421 chrX 155270560 1772308 0.011414320911832868 0.12490277666034139 chrY 59373566 147710 0.0024878074528991573 0.11957535442831213