miRNA display CGI


Results 1 - 18 of 18 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
24246 3' -47.7 NC_005263.2 + 11736 0.66 0.976016
Target:  5'- -aUGUCGAAGcccGCG-UUGCGUAAGCGc -3'
miRNA:   3'- gaAUAGCUUUc--CGCaGACGCGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 20094 0.66 0.969757
Target:  5'- gCUUAUCcugucccugcuGAAGGCGcggaUGCGCAGGCGu -3'
miRNA:   3'- -GAAUAGc----------UUUCCGCag--ACGCGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 24595 0.66 0.966225
Target:  5'- -aUGUCGGGcgcAGGCGguggCgGCGCAGGuCAa -3'
miRNA:   3'- gaAUAGCUU---UCCGCa---GaCGCGUUU-GU- -5'
24246 3' -47.7 NC_005263.2 + 29607 0.67 0.962411
Target:  5'- --gAUCGcGAGGCGU-UGCGCuucgGACGg -3'
miRNA:   3'- gaaUAGCuUUCCGCAgACGCGu---UUGU- -5'
24246 3' -47.7 NC_005263.2 + 32475 0.67 0.944193
Target:  5'- -----aGAucGGCGUCgGCGCAuuCAg -3'
miRNA:   3'- gaauagCUuuCCGCAGaCGCGUuuGU- -5'
24246 3' -47.7 NC_005263.2 + 41466 0.67 0.944193
Target:  5'- --gAUCGAGcAGGCG-CUGCucgacGCGGGCGa -3'
miRNA:   3'- gaaUAGCUU-UCCGCaGACG-----CGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 24532 0.67 0.944193
Target:  5'- -gUAUCGGGcaacGGCGgcgGCGCGGGCGg -3'
miRNA:   3'- gaAUAGCUUu---CCGCagaCGCGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 9451 0.68 0.938868
Target:  5'- uCUUggCGAGguuGGCGUCgaUGCGCGAcGCGg -3'
miRNA:   3'- -GAAuaGCUUu--CCGCAG--ACGCGUU-UGU- -5'
24246 3' -47.7 NC_005263.2 + 8018 0.68 0.912364
Target:  5'- --cGUCGAuuuugaugucuugcGAGGCGUCcGCGCcguGGCGc -3'
miRNA:   3'- gaaUAGCU--------------UUCCGCAGaCGCGu--UUGU- -5'
24246 3' -47.7 NC_005263.2 + 41525 0.69 0.892743
Target:  5'- --cGUCGAcuacuuGCGcCUGCGCAAACGc -3'
miRNA:   3'- gaaUAGCUuuc---CGCaGACGCGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 30507 0.69 0.884909
Target:  5'- --gAUCGucAGcGCGUCgugaccccgcUGCGCGAGCAg -3'
miRNA:   3'- gaaUAGCuuUC-CGCAG----------ACGCGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 16759 0.69 0.884909
Target:  5'- -cUGUCGAAAGGCa--UGC-CAGACAa -3'
miRNA:   3'- gaAUAGCUUUCCGcagACGcGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 3382 0.7 0.876777
Target:  5'- -aUGUCGAcGGGCGUCgccGUcguuGCGGGCAc -3'
miRNA:   3'- gaAUAGCUuUCCGCAGa--CG----CGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 14397 0.71 0.812237
Target:  5'- aCUg--CGAAAGGUGUCUGgCGCGu--- -3'
miRNA:   3'- -GAauaGCUUUCCGCAGAC-GCGUuugu -5'
24246 3' -47.7 NC_005263.2 + 24892 0.73 0.702844
Target:  5'- ----cCGcAAGGCGUCgGUGCAAGCGg -3'
miRNA:   3'- gaauaGCuUUCCGCAGaCGCGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 26137 0.74 0.667839
Target:  5'- --gGUCGAcguuGGCGaucaaCUGCGCAAACAg -3'
miRNA:   3'- gaaUAGCUuu--CCGCa----GACGCGUUUGU- -5'
24246 3' -47.7 NC_005263.2 + 24878 0.8 0.352503
Target:  5'- gUUGUUGccGGGCGUCUGCGCAaccuggAACAa -3'
miRNA:   3'- gAAUAGCuuUCCGCAGACGCGU------UUGU- -5'
24246 3' -47.7 NC_005263.2 + 6276 1.1 0.004007
Target:  5'- cCUUAUCGAAAGGCGUCUGCGCAAACAg -3'
miRNA:   3'- -GAAUAGCUUUCCGCAGACGCGUUUGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.