PetMar1 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-test 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-test
chrom
count
total
size
non-N
bases
N base
count
% masked common name/
src info
coverage N50
chrom.sizes
alignment type % of petMar1
matched
(chainLink table)
chain
minScore
chain
linearGap
01petMar1 108,241 1,027,258,967831,696,438 195,562,529% 40.67 Lamprey5.9X 14239 N/AN/A N/A N/A
02galGal3 57 1,100,480,4411,042,583,135 57,897,306% 9.85 Chicken6.6X 94230402 Net2.682% 5000 loose
03hg18 49 3,107,677,2732,881,421,696 226,255,577% 48.85 Human20X 146274826 Net3.216% 5000 loose
04mm9 35 2,725,765,4812,620,345,972 105,419,509% 44.09 Mouse20X 131738871 Net3.132% 5000 loose
05oryLat1 26 843,500,808700,386,597 143,114,211% 33.05 Medaka10.6X 31848461 Net2.809% 3000 medium
06braFlo1 2 926,386,587831,202,022 95,184,565% 26.41 Lancelet11.5X 926371504 Net3.291% 5000 loose