Markup | Genome Research

Table 1.

Analysis of the Avoidance of Palindromes and RS of Length 4 and 6 in Bacterial Genomes (Wilcoxon Tests)

Bacteria		Length 4		Length 6
Bacteria		Palindromes		RMS		Palindromes	RMS
	bias	O/E	bias	bias	O/E	bias
aepe	0	0.78	NA	0	0.92	NA
aqae	—	0.46	NA	—	0.63	NA
arfu	—	0.48	NA	—	0.53	NA
basu	—	0.41	-	—	0.58	-
bobu	—	0.52	NA	0	0.89	NA
caje	—	0.51	NA	—	0.66	NA
chpn	—	0.43	NA	0	1.06	NA
chtr	—	0.40	NA	0	1.12	NA
esco	—	0.44	4^*	—	0.44	—
hain	—	0.19	-	—	0.30	-
hepy	—	0.45	0	—	0.46	NA
meja	—	0.47	0	—	0.78	NA
meth	0	1.05	0	0	0.88	NA
myge	—	0.57	NA	—	0.76	NA
myle	0	1.07	NA	0	0.88	NA
mypn	0	0.78	NA	—	0.72	NA
mytu	0	0.95	NA	0	0.90	NA
neme	—	0.40	2^*	—	0.35	0
psae	—	0.46	NA	—	0.63	—
pyab	0	0.91	NA	-	0.83	NA
pyho	0	0.93	NA	0	0.90	NA
ripr	—	0.54	NA	—	0.73	NA
sysp	—	0.62	5^*	—	0.41	0
thma	-	0.67	NA	-	0.83	NA
trpa	-	0.72	2^*	-	0.86	NA
urur	-	0.70	NA	0	0.91	NA

[i] Palindrome bias is the test that palindromes are more biased than the remaining words. O/E displays the ratio observed/expected of the mean rank of palindromes sorted by decreasing avoidance. RMS avoidance is the result of the Wilcoxon test that RS are more biased than the remained palindromes.

[ii] Abbreviations: NA, unknown RMS on the species; n*, rank of the sole RS known in the species for 4-palindromes (not enough elements for nonparametric statistics); —, underrepresentation (P-value <0.001); -, underrepresentation (P-value <0.05); 0, no bias. See Methods for species abbreviations.