XenTro9 11-way Genome size statistics

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see also

statistics collected from UCSC 2bit files

  • The external link in the first column goes to the FTP location where the genome sequence was obtained
  • The external links from the UCSC database name go to the UCSC genome-preview browser for that genome
  • N bases == unknown bases in the assembly marked by "N"
  • non-N bases == called bases in the assembly
  • total size == all bases in assembly, N and non-N
  • The % masked is masking from Repeat Masker or Window Masker plus TRF/Simple Repeats, whichever is greater, usually WindowMasker for these genomes
  • The common name external links go to information pages for this genome
  • The coverage numbers are taken directly from information README files from the sequencing center
  • The N50 size is calculated directly from the UCSC chrom.sizes file which is the size of the chromosomes as seen in the UCSC genome browser

do not edit, automatically generated table

order
count/
ftp src
ucsc
db name/
genome-preview
chrom
count
total
size
non-N
bases
N base
count
% masked common name/
src info
coverage N50
chrom.sizes
alignment type % of xenTro9
matched
(chainLink table)
chain
minScore
chain
linearGap
01xenTro9 6,822 1,440,398,4541,369,865,365 70,533,089% 34.42 X. tropicalis7.6X 135134832 N/AN/A N/A N/A
02xenLae2 108,033 2,718,433,8052,408,724,787 309,709,018% 40.59 African clawed frog30X 136570856 SyntenicNet54.877% 1000 loose
03nanPar1 25,187 2,053,849,5261,977,771,384 76,078,142% 38.90 Tibetan frog83X 1069101 RecipBest8.180% 1000 loose
04chrPic2 78,595 2,365,766,5622,173,204,089 192,562,473% 31.52 Painted turtle15X 7072151 RecipBest6.459% 5000 loose
05monDom5 11 3,605,631,7283,501,660,299 103,971,429% 55.95 Opossum6.8X 527952102 SyntenicNet5.414% 5000 loose
06galGal5 23,475 1,230,258,5571,218,492,533 11,766,024% 25.74 Chicken70X 82310166 SyntenicNet3.387% 1000 loose
07anoCar2 6,457 1,799,143,5871,701,353,767 97,789,820% 41.98 Lizard7.1X 150641573 SyntenicNet5.977% 5000 loose
08canFam3 3,268 2,410,976,8752,392,715,236 18,261,639% 43.01 Dog7.6X 63241923 SyntenicNet3.311% 5000 loose
09hg38 455 3,209,286,1053,049,315,783 159,970,322% 52.10 Human20X 145138636 SyntenicNet7.950% 5000 loose
10mm10 66 2,730,871,7742,652,783,500 78,088,274% 45.18 Mouse20X 130694993 SyntenicNet6.581% 5000 loose
11fr3 6,835 391,484,715350,961,831 40,522,884% 19.01 Fugu8.5X 11516971 SyntenicNet3.777% 5000 loose