Table 1 Characterization of editing prediction pipeline
A | ||||
|---|---|---|---|---|
# of all m.m. in Alu | # of A-to-I in Alu | A-to-I ration in all m.m. | ||
STEP2: w/o PSS cutoff | 95,187 | 57,502 | 60.41% | |
STEP3: PSS cutoff | 8,721 | 7,266 | 83.32% | |
STEP4: in editing box | 1,995 | 1,995 | 100% | |
B | ||||
Alu | Non- Alu repetitive | Non-repetitive | ||
A-to-I | Editing boxes (sites) | 238 (1995) | 7 (61) | 21 (189) |
Ave. length (nt) | ~108 nt | ~86 nt | ~71 nt | |
Ave. conversion rate of As to Is | ~31% | ~40% | ~51% | |
A-to-C | 0 | 0 | 2 [14] | |
T-to-G | 0 | 0 | 1 [6] | |
A-to-T | 0 | 0 | 0 | |
T-to-A | 0 | 0 | 0 | |
C-to-A | 0 | 1 [6] | 1 [5]* | |
G-to-T | 0 | 0 | 1 [5] | |
C-to-G | 0 | 0 | 0 | |
G-to-C | 0 | 0 | 1 [5]* | |
C-to-T | 0 | 0 | 1 [5] | |
G-to-A | 0 | 0 | 1 [6]* | |
C | ||||
in IR AIu s | within 1 kb to IR AIu s | > 1 kb to IR AIu s | ||
A-to-I editing boxes (sites) | 208 (1763) | 36 (310) | 24 (172) | |