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Table 1 The 20 most frequent 5’ bulges, 3’ bulges, and internal loop

From: Analysis of secondary structural elements in human microRNA hairpin precursors

  5’ Bulge 3’ Bulge Internal Loops
# Unpaired Count Fractiona Unpaired Count Fractiona Unpaired Count Fractiona
1 U 257 0.236 A 215 0.233 G/G 325 0.084
2 A 212 0.195 U 195 0.211 A/C 295 0.076
3 C 163 0.150 C 165 0.179 C/A 290 0.075
4 G 123 0.113 G 85 0.092 U/U 288 0.075
5 CU 20 0.018 GA 15 0.016 U/C 220 0.057
6 UU 18 0.017 UU 12 0.013 C/U 199 0.052
7 UC 16 0.015 AU 11 0.012 A/A 147 0.038
8 UA 13 0.012 UC 9 0.010 C/C 130 0.034
9 GU 12 0.011 AA 8 0.009 G/A 130 0.034
10 AA 11 0.010 CC 8 0.009 A/G 113 0.029
11 CA 11 0.010 CA 7 0.008 UU/UU 26 0.007
12 CC 11 0.010 GU 7 0.008 CA/CA 21 0.005
13 GA 11 0.010 UA 7 0.008 GUUG/AA 15 0.004
14 AU 10 0.009 CU 6 0.006 A/GG 14 0.004
15 AC 9 0.008 AC 5 0.005 UU/U 14 0.004
16 AG 7 0.006 GC 5 0.005 U/CU 13 0.003
17 UG 7 0.006 GG 5 0.005 GA/A 12 0.003
18 GG 4 0.004 UG 5 0.005 AG/G 11 0.003
19 UCAACA 4 0.004 AAA 4 0.004 UU/CU 11 0.003
20 ACC 3 0.003 CUU 4 0.004 A/GC 10 0.003
  1. afraction of the unpaired nucleotide sequence (loop) in its category (5’ bulge, 3’ bulge, or internal loop)