TarSyr2 17-way Genome size statistics

see also

• Tarsier 17-way TarSyr2 17-way conservation alignment
• Tarsier 17-way TarSyr2 17-way conservation lastz parameters
• all other UCSC Multiple Alignments

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 tarSyr2 matched (chainLink table)	chain minScore	chain linearGap
01	tarSyr2	337,189	3,453,864,774	3,405,755,564	48,109,210	% 47.85	Tarsier	48X	401181	N/A	N/A	N/A	N/A
02	panPan1	10,867	2,869,190,071	2,725,905,606	143,284,465	% 36.53	Bonobo	26X	10124892	RecipBest	52.289%	3000	medium
03	panTro4	24,129	3,309,577,922	2,902,338,967	407,238,955	% 51.29	Chimp	6X	143986469	SyntenicNet	51.284%	3000	medium
04	ponAbe2	55	3,446,771,396	3,093,543,172	353,228,224	% 50.89	Orangutan	6X	135191526	SyntenicNet	51.302%	3000	medium
05	gorGor3	46,823	3,029,553,646	2,822,760,080	206,793,566	% 48.80	Gorilla	2.1X	145327772	RecipBest	50.262%	3000	medium
06	nomLeu3	17,492	2,962,077,449	2,756,609,047	205,468,402	% 51.14	Gibbon	5.6X	117381234	SyntenicNet	50.545%	3000	medium
07	macFas5	7,601	2,946,843,737	2,803,866,385	142,977,352	% 50.11	Crab-eating macaque	68X	152835861	SyntenicNet	51.814%	3000	medium
08	papAnu2	63,250	2,948,380,710	2,893,250,291	55,130,419	% 38.95	Baboon	85X	139646187	SyntenicNet	51.652%	3000	medium
09	rheMac3	34,103	2,969,988,180	2,639,145,830	330,842,350	% 48.54	Rhesus	50X	150158102	SyntenicNet	50.710%	3000	medium
10	chlSab2	2,004	2,789,656,328	2,752,000,999	37,655,329	% 48.77	Green monkey	95X	101219884	SyntenicNet	51.691%	3000	medium
11	hg38	455	3,209,286,105	3,049,315,783	159,970,322	% 52.10	Human	20X	145138636	SyntenicNet	52.305%	3000	medium
12	rhiRox1	135,512	2,899,552,139	2,856,044,136	43,508,003	% 51.07	Golden snub-nosed monkey	53.7X	137426304	RecipBest	51.539%	3000	medium
13	nasLar1	319,550	3,011,982,740	2,397,109,760	614,872,980	% 46.33	Proboscis monkey	290X	137426304	RecipBest	47.164%	3000	medium
14	saiBol1	2,685	2,608,572,064	2,477,131,095	131,440,969	% 46.69	Squirrel monkey	80X	18744880	RecipBest	48.208%	3000	medium
15	micMur1	185,042	2,902,270,736	1,852,394,361	1,049,876,375	% 37.31	Mouse lemur	2X	140884	RecipBest	38.087%	3000	medium
16	calJac3	14,205	2,914,958,544	2,752,505,800	162,452,744	% 47.71	Marmoset	6X	132174527	SyntenicNet	48.629%	3000	medium
17	otoGar3	7,793	2,519,724,550	2,359,530,453	160,194,097	% 39.51	Bushbaby	137X	13852661	RecipBest	44.814%	3000	medium