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. Author manuscript; available in PMC: 2011 Oct 26.
Published in final edited form as: Biochemistry. 2010 Oct 26;49(42):9058–9062. doi: 10.1021/bi101164s

Table 1.

Summary of Database Search Results for RNA Triloopsa

Dataset 1: Triloop with
Adjacent Base Pair		 Dataset 2: Triloop Dataset 3: Adjacent Base Pairs Dataset 4: Triloop
Nucleotides Classified as
Purine (R) or Pyrimidine (Y)
Triloopa Freqb %c Triloopa Freqb %c Closing bp Freqb %c Triloopb Freqb %c
GGGGC 106 12.9 GGG 108 13.1 C-G 345 42.0 RRR 207 25.2
CGCAG 53 6.4 UAA 96 11.7 G-C 219 26.6 RYR 181 22.0
CUAAG 45 5.5 GCA 66 8.0 U-A 163 19.8 YRR 123 15.0
UUAAA 41 5.0 UUU 53 6.4 A-U 56 6.8 YYY 120 14.6
CAUAG 34 4.1 AUA 48 5.8 U-G 26 3.2 YYR 53 6.4
UGAAA 24 2.9 AAA 32 3.9 G-U 13 1.6 YRY 47 5.7
CUUUG 24 2.9 GAA 32 3.9 RYY 45 5.5
CUCUG 17 2.1 GUA 32 3.9 RRY 41 5.0
CAGAG 15 1.8 UCU 24 2.9
GGUAC 15 1.8 AGA 22 2.7
a

Not all combinations in Datasets 1 and 2 are shown due to space limitations. For each set of sequences, the strand is writen 5' to 3'.

b

Frequency of occurrence in the secondary structure database described in Materials and Methods.

c

Percent out of 822 triloops, the total number of triloops found in the secondary structure database.