Hg38 4-way Genome size statistics

see also

• Human 4-way Hg38 4-way conservation alignment
• Human 4-way Hg38 4-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-preview 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-preview	chrom count	total size	non-N bases	N base count	% masked	common name/ src info	coverage	N50 chrom.sizes	alignment type	% of hg38 matched (chainLink table)	chain minScore	chain linearGap
01	hg38	455	3,209,286,105	3,049,315,783	159,970,322	% 52.10	Human	20X	145138636	reference	reference	3000	medium
02	galVar1	179,514	3,187,660,572	2,802,837,430	384,823,142	% 38.66	Malayan flying lemur	55X	245189	Net	57.036%	3000	medium
03	tupChi1	50,750	2,846,580,235	2,706,389,135	140,191,100	% 40.02	Chinese tree shrew	80X	3670124	Net	45.256%	3000	medium
04	mm10	66	2,730,871,774	2,652,783,500	78,088,274	% 45.18	Mouse	20X	130694993	SyntenicNet	31.653%	3000	medium