Intron Evolution and Information processing in the DNA polymerase α gene in spirotrichous ciliates: A hypothesis for interconversion between DNA and RNA deletion

Table 3 Estimated frequency of intron-flanking repeats as large or larger than observed in the natural data under species-specific random models of ciliate genes.

		Assumed intron splicing constraints
Species	intron	None^†	Eukaryotic^‡	Ciliate^§
Holosticha	1	42**	2076+	4801~
Uroleptus	1	60**	2409+	5849~
Sterkiella	1	148**	6848	14413
Paraurostyla	1^\|\|	8129	72072	72072
Stylonychia	1^\|\|	7636	73737	737373
Eschaneustyla	1^\|\|	5928	81905	81905
Holosticha	2	709	408+	2583~
Uroleptus	2^\|\|	11191	17469	100000
Paraurostyla	2^\|\|	1415	26895	58273
Stylonychia	2^\|\|	12891	12891	27924
Sterkiella	2^\|\|	10739	10739	19570
Urostyla	1	4**	2+	0~
Uroleptus	3	19**	6895	42397
Eschaneustyla	2^\|\|	314**	81905	81905

** FDR ≤ 0.01, + FDR ≤ 0.1, ~FDR ≤ 0.25: FDR (False Discovery Rate) controlled within each column by the method of Benjamini and Hochberg (1995), which was shown to control the FDR for positively dependent test statistics by Benjamini and Yekutieli (2001).
^† No intron splicing constraints: the entire intron was permuted.
^‡ Eukaryotic intron splicing constraints: the two bases at the 5' and 3' intron ends were fixed.
^§ Putative ciliate intron splicing constraints: the five 5'-most and three 3'-most bases of the introns were fixed.
^|| The values in italics were calculated exactly, multiplied by 10⁵ and rounded; other values in upright face were calculated from permutation tests (N = 100,000).

ISSN: 1745-6150