EquCab2 Genome size statistics

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see also

statistics collected from UCSC 2bit files

  • The external links from the UCSC database name go to the sequencing center information pages for this 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 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
  • % masked == masked either with WindowMasker or RepeatMasker plus TRF simple repeats
  • % of equCab2 matched (chainLink table) == featureBits equCab2 chain<Db>Link == alignment coverage

do not edit, automatically generated table

order
count
ucsc
db name
chrom
count
total
size
non-N
bases
N base
count
% masked common name coverage N50
chrom.sizes
alignment type % of equCab2
matched
(chainLink table)
chain
minScore
chain
linearGap
01equCab2 34 2,484,532,0622,428,790,173 55,741,889% 40.97 Horse6.8X 91571448 N/AN/A 1000 N/A
02canFam2 41 2,531,673,9532,384,996,543 146,677,410% 40.63 Dog7.6X 67211953 Net70.875% 3000 medium
03hg18 49 3,107,677,2732,881,421,696 226,255,577% 48.85 Human20X 146274826 Net66.796% 3000 medium
04mm9 35 2,725,765,4812,620,345,972 105,419,509% 44.09 Mouse20X 131738871 Net37.150% 3000 medium
05ornAna1 201,523 1,996,811,2121,842,235,522 154,575,690% 47.89 Platypus6X 991605 Net5.466% 5000 loose
06galGal3 57 1,100,480,4411,042,583,135 57,897,306% 9.85 Chicken6.6X 94230402 Net3.019% 3000 medium