AnoCar2 Genome size statistics

see also

• Lizard 7-way AnoCar2 conservation alignment
• Lizard 7-way AnoCar2 conservation lastz parameters
• all other UCSC Multiple Alignments

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 anoCar2 matched (chainLink table) == featureBits anoCar2 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 anoCar2 matched (chainLink table)	chain minScore	chain linearGap
01	anoCar2	6,457	1,799,143,587	1,701,353,767	97,789,820	% 41.98	Lizard	7.1X	150641573	N/A	N/A		N/A
02	galGal3	57	1,100,480,441	1,042,583,135	57,897,306	% 9.85	Chicken	6.6X	94230402	Net	6.822%	5000	loose
03	ornAna1	201,523	1,996,811,212	1,842,235,522	154,575,690	% 47.89	Platypus	6X	991605	Net	4.561%	5000	loose
04	hg19	93	3,137,161,264	2,897,310,462	239,850,802	% 50.63	Human	20X	146364022	Net	5.190%	5000	loose
05	mm9	35	2,725,765,481	2,620,345,972	105,419,509	% 44.09	Mouse	20X	131738871	Net	4.981%	5000	loose
06	xenTro2	19,759	1,513,925,492	1,359,400,017	154,525,475	% 19.65	X. tropicalis	7.65X	1564123	Net	5.053%	5000	loose
07	gasAcu1	23	463,354,448	446,627,861	16,726,587	% 2.58	Stickleback	6X	20083130	Net	3.143%	5000	loose