Markup | Genome Research

Table 4.

Primate Genome Size Variation

		All		Repeats		Unique
		Length (bp)	%	Length (bp)	%	Length (bp)	%
Human	5410556	100.00	2204532	40.75	3206024	59.25
Chimpanzee	5351536	98.91	2148580	39.71	3202956	59.20
Difference	59020	1.09^**	55952	1.03^**	3068	0.06
Human	5560707	100.00	2181276	39.23	3379431	60.77
Baboon	5527115	99.40	2143997	38.56	3383118	60.84
Difference	33592	0.60	37279	0.67^a	−3687	−0.07
Human	924753	100.00	374742	40.52	550011	59.48
Lemur	749135	81.01	216540	23.42	532595	57.59
Difference	175618	18.99^**	158202	17.11^**	17416	1.88
Baboon	790055	100.00	278145	35.21	511910	64.79
Lemur	675780	85.54	187084	23.68	488696	61.86
Difference	114275	14.46^**	91061	11.53^**	23214	2.94

[i] For orthologous genomic comparisons, the length of aligned sequence and difference were considered for each species comparison. Repetitive and unique portions were identified using RepeatMasker (version 3.0) from human–chimpanzee (51 loci), human–baboon (42 loci), human– lemur (nine loci), and baboon–lemur (eight loci) comparisons. In the event that lemur common repeats were not efficiently masked, intraspecific sequence similarity searches (BLAST) were performed to identify potentially missing repeats. Relative percentages were calculated assuming the length of larger primate genome (human or baboon) as 100%. Significance of the difference in genome size was tested by a permutation test (10,000 replicates). *P < 0.05; **P < 0.01. ^aThe difference in repeat composition is greater than the total due to an expansion of LTR content and deletion of 3687 bp of unique sequence. Table S8 shows a more detailed breakdown by repeat class for both human–lemur and baboon–lemur alignments.