miRNA display CGI


Results 1 - 20 of 45 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
22735 3' -57 NC_005091.1 + 30298 0.66 0.648407
Target:  5'- aCGuuGUCGAGGUCGaagaCGCCccgGCCGg -3'
miRNA:   3'- gGCcgUAGCUCUAGUag--GCGGa--CGGC- -5'
22735 3' -57 NC_005091.1 + 26666 0.66 0.655913
Target:  5'- cCCGGCGUUGAGcgCAUCaCGCgcgaacaucugguaCgcgaugGCCGc -3'
miRNA:   3'- -GGCCGUAGCUCuaGUAG-GCG--------------Ga-----CGGC- -5'
22735 3' -57 NC_005091.1 + 27994 0.66 0.680484
Target:  5'- gCCGGCcgacacgaccugAUCGuAGGU-AUCCGCC-GCCa -3'
miRNA:   3'- -GGCCG------------UAGC-UCUAgUAGGCGGaCGGc -5'
22735 3' -57 NC_005091.1 + 48609 0.66 0.680484
Target:  5'- gCGGcCGUCGGGGUCccAUCCGgCgagGCgCGa -3'
miRNA:   3'- gGCC-GUAGCUCUAG--UAGGCgGa--CG-GC- -5'
22735 3' -57 NC_005091.1 + 25720 0.66 0.680484
Target:  5'- gCGGCcagcUCGGcGAUCggCUGCCcGCCGc -3'
miRNA:   3'- gGCCGu---AGCU-CUAGuaGGCGGaCGGC- -5'
22735 3' -57 NC_005091.1 + 17469 0.66 0.648407
Target:  5'- aCGaGCAcaaUCGAGAUCGUCgCGCggcagaacaUGCCa -3'
miRNA:   3'- gGC-CGU---AGCUCUAGUAG-GCGg--------ACGGc -5'
22735 3' -57 NC_005091.1 + 9348 0.66 0.669822
Target:  5'- gCGGCgagcaGUCGAc--CAUUCGCCgGCCGg -3'
miRNA:   3'- gGCCG-----UAGCUcuaGUAGGCGGaCGGC- -5'
22735 3' -57 NC_005091.1 + 10114 0.66 0.659126
Target:  5'- cCCGGCGaugaacaaCGuGGUCG-CCGUCgUGCCGg -3'
miRNA:   3'- -GGCCGUa-------GCuCUAGUaGGCGG-ACGGC- -5'
22735 3' -57 NC_005091.1 + 14597 0.66 0.659126
Target:  5'- cCCGGCAUCGAGcggCA--CGCUUaCCGg -3'
miRNA:   3'- -GGCCGUAGCUCua-GUagGCGGAcGGC- -5'
22735 3' -57 NC_005091.1 + 35807 0.67 0.594782
Target:  5'- aCCGGCAgcuucgCGaAGAagGUCUGCacgGCCGu -3'
miRNA:   3'- -GGCCGUa-----GC-UCUagUAGGCGga-CGGC- -5'
22735 3' -57 NC_005091.1 + 28368 0.67 0.616201
Target:  5'- aCCGGCAgcaaggCGaAGGUCAcgcaagCCGCCagcgcgucGCCGg -3'
miRNA:   3'- -GGCCGUa-----GC-UCUAGUa-----GGCGGa-------CGGC- -5'
22735 3' -57 NC_005091.1 + 30513 0.67 0.626935
Target:  5'- cCCGcGUAgCGuAGGUCAUCgGCCgGCCc -3'
miRNA:   3'- -GGC-CGUaGC-UCUAGUAGgCGGaCGGc -5'
22735 3' -57 NC_005091.1 + 23427 0.67 0.631231
Target:  5'- aCCGGCcUCGGGA-CGuggggccuuggcgcuUCCguGCCUGCUGc -3'
miRNA:   3'- -GGCCGuAGCUCUaGU---------------AGG--CGGACGGC- -5'
22735 3' -57 NC_005091.1 + 18522 0.67 0.593713
Target:  5'- cCCGGCGacaauuccgcauuUCGAcuacaCGUCCgGCCUGCUGa -3'
miRNA:   3'- -GGCCGU-------------AGCUcua--GUAGG-CGGACGGC- -5'
22735 3' -57 NC_005091.1 + 2498 0.67 0.615128
Target:  5'- gCGGCA-CGAGAUCGgcguguuucucaaUCaCGuUCUGCCGc -3'
miRNA:   3'- gGCCGUaGCUCUAGU-------------AG-GC-GGACGGC- -5'
22735 3' -57 NC_005091.1 + 1686 0.67 0.584113
Target:  5'- uCCGGCAUCGGc--UAUCgGCCUGaaGg -3'
miRNA:   3'- -GGCCGUAGCUcuaGUAGgCGGACggC- -5'
22735 3' -57 NC_005091.1 + 50270 0.67 0.584113
Target:  5'- aCCGGCAUUGcggcGAUCGUCUcaGCCaucGUCGg -3'
miRNA:   3'- -GGCCGUAGCu---CUAGUAGG--CGGa--CGGC- -5'
22735 3' -57 NC_005091.1 + 41158 0.67 0.594782
Target:  5'- aCGGUAUccuugcCGAGGUCAUcgaaacgauacCCGCgUGCCu -3'
miRNA:   3'- gGCCGUA------GCUCUAGUA-----------GGCGgACGGc -5'
22735 3' -57 NC_005091.1 + 11202 0.68 0.531489
Target:  5'- gCGGCAUCGGGA-CuUCCGCUUucgggggagGCCc -3'
miRNA:   3'- gGCCGUAGCUCUaGuAGGCGGA---------CGGc -5'
22735 3' -57 NC_005091.1 + 55693 0.68 0.527347
Target:  5'- cCCGGCuugccgcaucacuUCGccGAUCG-CCGCCUGCaCGa -3'
miRNA:   3'- -GGCCGu------------AGCu-CUAGUaGGCGGACG-GC- -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.