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Table 1 Characterization of editing prediction pipeline

From: Prediction of constitutive A-to-I editing sites from human transcriptomes in the absence of genomic sequences

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)
  1. (A) The enrichment of A-to-I conversion in Alu elements after each step of our computational flow. (B) Editing boxes/sites distribution in Alu, non-Alu repetitive and non-repetitive regions. Asterisk indicated non A-to-Gs (noncanonical editing) sites are validated to be false positives. (C) Editing boxes/sites distribution in IRAlus, within 1 kb to IRAlus and over 1 kb to IRAlus.