Stable stem enabled Shannon entropies distinguish non-coding RNAs from random backgrounds

BMC Bioinformatics

Table 4 Comparisons of TRIPLE and RNAfold by the percentages of sequences falling in each category of a Z-score range.

Dataset	Method	≥2 (%)	≥1.5 (%)	≥1 (%)	≥0.5 (%)
Hh1	TRIPLE	6.67	33.33	53.33	73.33
	RNAfold	0.00	0.00	20.00	53.33
sno_guide	TRIPLE	14.91	25.43	41.10	57.95
	RNAfold	1.47	7.33	24.21	44.01
sn_splice	TRIPLE	31.65	43.04	56.96	65.82
	RNAfold	6.33	24.05	53.16	68.35
SRP	TRIPLE	32.47	45.45	55.84	68.83
	RNAfold	5.19	29.87	59.74	77.92
tRNA	TRIPLE	24.07	45.31	64.25	79.47
	RNAfold	0.00	6.19	26.19	48.85
intron	TRIPLE	59.81	68.22	74.77	84.11
	RNAfold	1.87	16.82	58.88	85.98
riboswitch	TRIPLE	32.03	44.44	56.86	71.90
	RNAfold	1.31	20.92	49.67	71.24
miRNA	TRIPLE	75.56	81.48	90.37	93.33
	RNAfold	0.74	10.37	69.63	97.78
telomerase	TRIPLE	23.53	29.41	41.18	58.82
	RNAfold	5.88	17.65	35.29	58.82
RNase	TRIPLE	38.03	56.34	72.54	87.32
	RNAfold	1.41	15.49	35.92	61.27
regulatory	TRIPLE	18.97	25.86	31.03	51.72
	RNAfold	0.00	5.17	32.76	67.24
tmRNA	TRIPLE	15.25	27.12	38.98	57.63
	RNAfold	0.00	11.86	35.59	45.76
rRNA	TRIPLE	34.09	47.31	64.88	79.96
	RNAfold	1.86	17.98	37.60	57.64

Random sequences were obtained with single nucleotide shuffling of the real ncRNA sequences.

ISSN: 1471-2105