DanRer7 Genome size statistics

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 danRer7 matched (chainLink table) == featureBits danRer7 chain<Db>Link == alignment coverage

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 danRer7 matched (chainLink table)	chain minScore	chain linearGap
01	danRer7	1,133	1,412,464,843	1,409,770,109	2,694,734	% 52.06	Zebrafish	30X	54093808	N/A	N/A	N/A	N/A
02	gasAcu1	23	463,354,448	446,627,861	16,726,587	% 2.58	Stickleback	6X	20083130	MAF net	10.270%	2000	medium
03	oryLat2	7,189	869,000,216	700,386,597	168,613,619	% 33.09	Medaka	10.6X	29908082	MAF net	10.032%	2000	medium
04	tetNig2	27	358,618,246	302,314,788	56,303,458	% 20.27	Tetraodon	7.9X	13390619	MAF net	6.273%	2000	medium
05	fr2	2	400,525,790	351,212,245	49,313,545	% 19.01	Fugu	8.5X	400509343	MAF net	7.363%	2000	medium
06	xenTro2	19,759	1,513,925,492	1,359,400,017	154,525,475	% 19.65	X. tropicalis	7.65X	1564123	MAF net	6.428%	5000	loose
07	mm9	35	2,725,765,481	2,620,345,972	105,419,509	% 44.09	Mouse	20X	131738871	MAF net	5.104%	5000	loose
08	hg19	93	3,137,161,264	2,897,310,462	239,850,802	% 50.63	Human	20X	146364022	MAF net	6.151%	5000	loose