OtoGar3 3-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

genome size statistics
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
X
N50
chrom.sizes
alignment type % of otoGar3
matched
(chainLink table)
chain
minScore
chain
linearGap
01 otoGar3 7,793 2,519,724,550 2,359,530,453 160,194,097 % 39.51 Bushbaby 137 13852661 N/A N/A N/A N/A
02 micMur3 7,678 2,487,409,138 2,386,321,897 101,087,241 % 41.27 Mouse lemur 221.6 108171978 SyntenicNet 69.178% 3000 medium
03 hg38 455 3,209,286,105 3,049,315,783 159,970,322 % 52.10 Human 20 145138636 SyntenicNet 64.899% 3000 medium