Genomic neighborhoods for Arabidopsisretrotransposons: a role for targeted integration in the distribution of the Metaviridae

Table 4 Association of retroelements with heterochromatin

Hypotheses	Test	Group(s) tested	p-values	Accept?
All families share a similar probability of being in or outside heterochromatin	MRPP, 10,000 random permutations	MV(FSR), PV(FSR), NL(R)	0.0000	No
		MV(FSR), PV(FSR)	0.0000	No
		MV(FSR), NL(R)	0.0000	No
		PV(FSR), NL(R)	0.0000	No
Metaviridae sublineages have similar heterochromatic distributions	MRPP, 10,000 random permutations	MV Athila, Metavirus, Tat	0.0011	No
		MV Athila, Metavirus	0.0016	No
		MV Athila, Tat	0.5211	Yes
		MV Metavirus, Tat	0.0105	No
Element subtypes have similar heterochromatic distributions	MRPP, 1,000 random permutations	MV(SR), PV(SR), NL(R)	0.0000	No
		MV(FR), PV(FR), NL(R)	0.3960	Yes
		MV(FS), PV(FS)	0.0000	No
Pseudoviridae subtypes have similar heterochromatic distributions	Pearson's chi-square	PV(FSR)	0.0002	No
		PV(FS)	0.0001	No
		PV(FR)	0.0073	No
		PV(SR)	0.9419	Yes
Metaviridae subtypes have similar heterochromatic distributions	Pearson's chi-square	MV(FSR)	0.0001	No
		MV(FS)	0.0002	No
		MV(FR)	0.5146	Yes
		MV(SR)	0.0159	No

MV, Metaviridae; PV, Pseudoviridae; NL, non-LTR retrotransposon; R, RT-only; S, solo LTR; F, full-length element. p-values < 0.05 are displayed in bold text.

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