miRNA display CGI


Results 1 - 20 of 42 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
17159 3' -50.1 NC_004333.2 + 21533 1.11 0.00276
Target:  5'- cGCGUCGAACGCGUAUCGUCCGAAUCGc -3'
miRNA:   3'- -CGCAGCUUGCGCAUAGCAGGCUUAGC- -5'
17159 3' -50.1 NC_004333.2 + 2550 0.74 0.602427
Target:  5'- aGCGUCGAucgucucgaacaACGCGgcuUCGUUCGGcgCGc -3'
miRNA:   3'- -CGCAGCU------------UGCGCau-AGCAGGCUuaGC- -5'
17159 3' -50.1 NC_004333.2 + 28965 0.73 0.624896
Target:  5'- cGCgGUCGAACGCGgcgAUCaGUugcgcggccgCCGggUCGg -3'
miRNA:   3'- -CG-CAGCUUGCGCa--UAG-CA----------GGCuuAGC- -5'
17159 3' -50.1 NC_004333.2 + 38524 0.72 0.714159
Target:  5'- uUGUCGAucugugcgACGCGUugcCGUCCGAcgCGc -3'
miRNA:   3'- cGCAGCU--------UGCGCAua-GCAGGCUuaGC- -5'
17159 3' -50.1 NC_004333.2 + 227 0.71 0.757139
Target:  5'- gGCGcCGAuCGUGUGcUCGcgCCGAAUCa -3'
miRNA:   3'- -CGCaGCUuGCGCAU-AGCa-GGCUUAGc -5'
17159 3' -50.1 NC_004333.2 + 23810 0.7 0.788016
Target:  5'- cGCGUCGAGCugccCGUuacgaCGUCCGAcgCa -3'
miRNA:   3'- -CGCAGCUUGc---GCAua---GCAGGCUuaGc -5'
17159 3' -50.1 NC_004333.2 + 32310 0.7 0.795013
Target:  5'- uGCGUcagcaggucggucaCGAGCGCGUGcaCGgcugCCGggUCGc -3'
miRNA:   3'- -CGCA--------------GCUUGCGCAUa-GCa---GGCuuAGC- -5'
17159 3' -50.1 NC_004333.2 + 30906 0.7 0.804856
Target:  5'- cGCGUCGAGCGCGUcgacgcuugccuucAUCG-CaCG-AUCa -3'
miRNA:   3'- -CGCAGCUUGCGCA--------------UAGCaG-GCuUAGc -5'
17159 3' -50.1 NC_004333.2 + 29991 0.7 0.814511
Target:  5'- gGCGcCGAGCGCGagcAccaugcggcgccgcUCGUCgGGAUCGg -3'
miRNA:   3'- -CGCaGCUUGCGCa--U--------------AGCAGgCUUAGC- -5'
17159 3' -50.1 NC_004333.2 + 37827 0.69 0.823965
Target:  5'- cGCGaUCGAguaccagacacagaACGCGaUcgCGUCCGGAcUCGa -3'
miRNA:   3'- -CGC-AGCU--------------UGCGC-AuaGCAGGCUU-AGC- -5'
17159 3' -50.1 NC_004333.2 + 3696 0.69 0.826761
Target:  5'- cGCGUCGuAGCuGCGgAUCGUCUG-GUUGa -3'
miRNA:   3'- -CGCAGC-UUG-CGCaUAGCAGGCuUAGC- -5'
17159 3' -50.1 NC_004333.2 + 20996 0.69 0.826761
Target:  5'- uGCGuuUCGAGCGCGUGgcagcCGUCaCGGG-CGa -3'
miRNA:   3'- -CGC--AGCUUGCGCAUa----GCAG-GCUUaGC- -5'
17159 3' -50.1 NC_004333.2 + 3769 0.69 0.844894
Target:  5'- aGCGUCG-ACGUGg--CGUUCuGAUCGg -3'
miRNA:   3'- -CGCAGCuUGCGCauaGCAGGcUUAGC- -5'
17159 3' -50.1 NC_004333.2 + 23731 0.69 0.853615
Target:  5'- uGCGUCGGACGuCGUAacgggcagcUCGacgcgcgaCGAGUCGu -3'
miRNA:   3'- -CGCAGCUUGC-GCAU---------AGCag------GCUUAGC- -5'
17159 3' -50.1 NC_004333.2 + 38243 0.69 0.853615
Target:  5'- gGCGgccauugCGAGCgGCGUgccaagAUCGgcggCCGggUCGg -3'
miRNA:   3'- -CGCa------GCUUG-CGCA------UAGCa---GGCuuAGC- -5'
17159 3' -50.1 NC_004333.2 + 28766 0.69 0.853615
Target:  5'- cGCGUCGAccGCGCGgGUCGcggCGGcgCGa -3'
miRNA:   3'- -CGCAGCU--UGCGCaUAGCag-GCUuaGC- -5'
17159 3' -50.1 NC_004333.2 + 21033 0.69 0.862095
Target:  5'- cGCGcCGcGCGCGUuugCGUCCGGc--- -3'
miRNA:   3'- -CGCaGCuUGCGCAua-GCAGGCUuagc -5'
17159 3' -50.1 NC_004333.2 + 22554 0.68 0.873542
Target:  5'- aGCGaCGAGCGCGcggugaaacccgccGUCGUCaCGAcAUCGg -3'
miRNA:   3'- -CGCaGCUUGCGCa-------------UAGCAG-GCU-UAGC- -5'
17159 3' -50.1 NC_004333.2 + 37250 0.68 0.878293
Target:  5'- cGCGUCguGAGCgGCGUGUCG-CCGcgcugCGg -3'
miRNA:   3'- -CGCAG--CUUG-CGCAUAGCaGGCuua--GC- -5'
17159 3' -50.1 NC_004333.2 + 9781 0.68 0.893432
Target:  5'- gGCGUuucgCGAAcCGCGUG-CG-CCGAAUCc -3'
miRNA:   3'- -CGCA----GCUU-GCGCAUaGCaGGCUUAGc -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.