miRNA display CGI


Results 1 - 20 of 49 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
18775 3' -59.7 NC_004683.1 + 10495 0.86 0.023284
Target:  5'- gCGAUGCUGCGGgccGGcUUCGCGCCGAGGa -3'
miRNA:   3'- -GCUACGGCGCCa--UC-AGGCGCGGCUCC- -5'
18775 3' -59.7 NC_004683.1 + 39808 0.67 0.45774
Target:  5'- cCGGaGCCaGCGGUcgaugaguuggGGUCCGCgugagugcgcucGCCGAGa -3'
miRNA:   3'- -GCUaCGG-CGCCA-----------UCAGGCG------------CGGCUCc -5'
18775 3' -59.7 NC_004683.1 + 24980 0.67 0.467274
Target:  5'- aCGAUccgGCCccuguucuacgaGUGGUucaUCCGCGCCGAGa -3'
miRNA:   3'- -GCUA---CGG------------CGCCAuc-AGGCGCGGCUCc -5'
18775 3' -59.7 NC_004683.1 + 46545 0.67 0.486643
Target:  5'- aCGAUGgCGCGGa--UCCGgGCCGGc- -3'
miRNA:   3'- -GCUACgGCGCCaucAGGCgCGGCUcc -5'
18775 3' -59.7 NC_004683.1 + 31385 0.66 0.506383
Target:  5'- cCGAUGUgGCGGUAGgccagcaCUGCGgCGAc- -3'
miRNA:   3'- -GCUACGgCGCCAUCa------GGCGCgGCUcc -5'
18775 3' -59.7 NC_004683.1 + 7054 0.66 0.516382
Target:  5'- uCGAgaCCGCGGU-GUCCGUcgacGCCGAa- -3'
miRNA:   3'- -GCUacGGCGCCAuCAGGCG----CGGCUcc -5'
18775 3' -59.7 NC_004683.1 + 46454 0.66 0.526458
Target:  5'- gGA-GCCGCuGUuccGUCCGgcCGCCGAGa -3'
miRNA:   3'- gCUaCGGCGcCAu--CAGGC--GCGGCUCc -5'
18775 3' -59.7 NC_004683.1 + 40225 0.66 0.526458
Target:  5'- aCGAcGCCGagcaGGcCCGCGCCGAGc -3'
miRNA:   3'- -GCUaCGGCgccaUCaGGCGCGGCUCc -5'
18775 3' -59.7 NC_004683.1 + 3132 0.66 0.546825
Target:  5'- cCGAUGCCGauGUGGUCgGC-UCGAa- -3'
miRNA:   3'- -GCUACGGCgcCAUCAGgCGcGGCUcc -5'
18775 3' -59.7 NC_004683.1 + 15610 0.68 0.429782
Target:  5'- aGAUcgugGCCGCGGgcacgCCGCuGCgGAGGu -3'
miRNA:   3'- gCUA----CGGCGCCauca-GGCG-CGgCUCC- -5'
18775 3' -59.7 NC_004683.1 + 33600 0.68 0.41171
Target:  5'- gCGAUugaGCCGCuGGUAGUaCCGCa-CGGGGc -3'
miRNA:   3'- -GCUA---CGGCG-CCAUCA-GGCGcgGCUCC- -5'
18775 3' -59.7 NC_004683.1 + 52018 0.68 0.402853
Target:  5'- cCGAaauCUGCGGcguucCCGCGCCGAGGc -3'
miRNA:   3'- -GCUac-GGCGCCauca-GGCGCGGCUCC- -5'
18775 3' -59.7 NC_004683.1 + 3438 0.72 0.234512
Target:  5'- aCGcgGCCGacauccaGaaGGUCCGCGCCGAGa -3'
miRNA:   3'- -GCuaCGGCg------CcaUCAGGCGCGGCUCc -5'
18775 3' -59.7 NC_004683.1 + 38905 0.72 0.23686
Target:  5'- gGAUGCCGCGGaaugcucgucucugAGccuguuUCCGCGUCGAGcGg -3'
miRNA:   3'- gCUACGGCGCCa-------------UC------AGGCGCGGCUC-C- -5'
18775 3' -59.7 NC_004683.1 + 49051 0.7 0.336507
Target:  5'- cCGAUGCaCGCGcccgaaugGGUcaCCGCGCCGcGGg -3'
miRNA:   3'- -GCUACG-GCGCca------UCA--GGCGCGGCuCC- -5'
18775 3' -59.7 NC_004683.1 + 42576 0.69 0.34435
Target:  5'- cCGAgcgcGCCGCGGcGGUCgGgGCCGGu- -3'
miRNA:   3'- -GCUa---CGGCGCCaUCAGgCgCGGCUcc -5'
18775 3' -59.7 NC_004683.1 + 30504 0.69 0.360426
Target:  5'- uCGAUGCCGaGGUGGa-UGuCGCUGAGGc -3'
miRNA:   3'- -GCUACGGCgCCAUCagGC-GCGGCUCC- -5'
18775 3' -59.7 NC_004683.1 + 44855 0.69 0.377018
Target:  5'- ---cGCCGUGGUGGcCCG-GCCugGAGGc -3'
miRNA:   3'- gcuaCGGCGCCAUCaGGCgCGG--CUCC- -5'
18775 3' -59.7 NC_004683.1 + 241 0.69 0.385505
Target:  5'- gCGAUGCCGCcgcugcuGcCCGCGgCGGGGc -3'
miRNA:   3'- -GCUACGGCGccau---CaGGCGCgGCUCC- -5'
18775 3' -59.7 NC_004683.1 + 48220 0.68 0.394117
Target:  5'- uGAUGCaCGCGGcGGgaacaaaUCGCGCCGAa- -3'
miRNA:   3'- gCUACG-GCGCCaUCa------GGCGCGGCUcc -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.