GorGor3 Genome size statistics

see also

• Gorilla 11-way GorGor3 conservation alignment
• Gorilla 11-way GorGor3 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 gorGor3 matched (chainLink table)	chain minScore	chain linearGap
01	gorGor3	46,823	3,029,553,646	2,822,760,080	206,793,566	% 48.80	Gorilla	2.1X	145327772	N/A	N/A	N/A	N/A
02	panTro3	24,132	3,307,960,432	2,900,529,764	407,430,668	% 50.64	Chimp	6X	143986469	Net	89.043%	5000	medium
03	hg19	93	3,137,161,264	2,897,310,462	239,850,802	% 50.63	Human	20X	146364022	Net	91.109%	5000	medium
04	nomLeu1	17,968	2,936,035,333	2,756,591,777	179,443,556	% 50.82	Gibbon	5.6X	22692035	Net	83.476%	5000	medium
05	ponAbe2	55	3,446,771,396	3,093,543,172	353,228,224	% 50.89	Orangutan	6X	135191526	Net	86.354%	5000	medium
06	papHam1	387,374	2,867,564,654	2,741,849,051	125,715,603	% 48.70	Baboon	5.3X	88525	Net	79.434%	5000	medium
07	rheMac2	22	2,864,106,071	2,646,668,809	217,437,262	% 48.28	Rhesus	5.1X	153947521	Net	79.244%	5000	medium
08	calJac3	14,205	2,914,958,544	2,752,505,800	162,452,744	% 47.71	Marmoset	6X	132174527	Net	68.507%	5000	medium
09	tarSyr1	656,709	3,179,905,132	2,768,536,343	411,368,789	% 41.75	Tarsier	2X	12214	Net	19.482%	5000	medium
10	micMur1	185,042	2,902,270,736	1,852,394,361	1,049,876,375	% 37.31	Mouse lemur	2X	140884	Net	22.908%	5000	medium
11	otoGar1	120,882	3,420,058,864	1,969,052,059	1,451,006,805	% 34.89	Bushbaby	2X	139426	Net	12.017%	5000	medium