Sequence determinants of human microsatellite variability

BMC Genomics

Table 3 The effect of repeat unit sequence on microsatellite heterozygosity for tetra-nucleotide loci

	AAAT & TTTA	AATG	CATA & GTAT	TTCA	GATG	ATCT & TAGA	AAGG & TTCC
Number of loci	30	4	8	3	5	253	18
Mean H_e	0.683	0.691	0.714	0.719	0.722	0.744	0.789
AAAT [AATA-ATAA-TAAA] & TTTA [TTAT-TATT-ATTT]		0.979	0.407	0.416	0.421	4.49 × 10 ^-4	4.80 × 10 ^-5
AATG [ATGA-TGAA-GAAT]			0.808	0.857	0.556	0.229	0.066
CATA [ATAC-TACA-ACAT] & GTAT [TATG-ATGT-TGTA]				0.921	1	0.239	0.011
TTCA [TCAT-CATT-ATTC]					0.786	0.541	0.080
GATG [ATGG-TGGA-GGAT]						0.304	0.019
ATCT [TCTA-CTAT-TATC] & TAGA [AGAT-GATA-ATAG]							0.003
AAGG [AGGA-GGAA-GAAG] & TTCC [TCCT-CCTT-CTTC]

P values are shown for two-sided Wilcoxon rank-sum tests for differences in heterozygosity (H_e) between the different repeat unit sequences of microsatellites with one tetra-nucleotide STR region. Four loci were excluded from these comparisons because their repeat unit sequences only appeared once (TTTG and GAAA) or twice (TCCA) in the data set. Tests with P < 0.05 are highlighted in bold.

ISSN: 1471-2164