miRNA display CGI


Results 1 - 20 of 26 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
20517 3' -53.2 NC_004688.1 + 78137 0.65 0.96014
Target:  5'- uUUAUCCGGuugCGCAUaucggcuugauUCCGGAGGc -3'
miRNA:   3'- cAAUAGGCCua-GCGUGgu---------GGGCUUCC- -5'
20517 3' -53.2 NC_004688.1 + 100865 0.66 0.95712
Target:  5'- ----gCUGGAUCuaaaggcgGUGCCGCCCGAcGGc -3'
miRNA:   3'- caauaGGCCUAG--------CGUGGUGGGCUuCC- -5'
20517 3' -53.2 NC_004688.1 + 19098 0.66 0.95712
Target:  5'- --gAUCCGGGccacgCGCugCAUgauuUCGAAGGc -3'
miRNA:   3'- caaUAGGCCUa----GCGugGUG----GGCUUCC- -5'
20517 3' -53.2 NC_004688.1 + 15049 0.66 0.956731
Target:  5'- ------aGGAUUGCguacgguGCgGCCCGAAGGg -3'
miRNA:   3'- caauaggCCUAGCG-------UGgUGGGCUUCC- -5'
20517 3' -53.2 NC_004688.1 + 1204 0.66 0.939686
Target:  5'- ---cUCCGGAgUCGC-CCACggGAAGGu -3'
miRNA:   3'- caauAGGCCU-AGCGuGGUGggCUUCC- -5'
20517 3' -53.2 NC_004688.1 + 75976 0.67 0.929472
Target:  5'- --cGUCgCGGGUCGCAUC-CuuGAAGc -3'
miRNA:   3'- caaUAG-GCCUAGCGUGGuGggCUUCc -5'
20517 3' -53.2 NC_004688.1 + 48199 0.67 0.923984
Target:  5'- cGUg--CUGGAUgGcCGCCACCCGcccGGGc -3'
miRNA:   3'- -CAauaGGCCUAgC-GUGGUGGGCu--UCC- -5'
20517 3' -53.2 NC_004688.1 + 56307 0.67 0.922288
Target:  5'- -aUAUCCGaGUCGCcggcuuccagcgcgGCCACCUcaaacaGAAGGg -3'
miRNA:   3'- caAUAGGCcUAGCG--------------UGGUGGG------CUUCC- -5'
20517 3' -53.2 NC_004688.1 + 100363 0.67 0.917655
Target:  5'- -aUAUCUGGcccuuauAUCuaGCCacACCCGAAGGu -3'
miRNA:   3'- caAUAGGCC-------UAGcgUGG--UGGGCUUCC- -5'
20517 3' -53.2 NC_004688.1 + 11564 0.67 0.912249
Target:  5'- ----gCUGGAUCGC-UUGCCCGAAGu -3'
miRNA:   3'- caauaGGCCUAGCGuGGUGGGCUUCc -5'
20517 3' -53.2 NC_004688.1 + 30910 0.68 0.899509
Target:  5'- ----cCCGGAUCGaccgggguCACCACCgGGuuGGGg -3'
miRNA:   3'- caauaGGCCUAGC--------GUGGUGGgCU--UCC- -5'
20517 3' -53.2 NC_004688.1 + 23185 0.68 0.899509
Target:  5'- ----aCUGGAUCuccaGCGCCGCCUGcuGGg -3'
miRNA:   3'- caauaGGCCUAG----CGUGGUGGGCuuCC- -5'
20517 3' -53.2 NC_004688.1 + 5995 0.68 0.885785
Target:  5'- --gGUCUGGAacaucacccUCGCGCCcggguuggGCCCGucGAGGa -3'
miRNA:   3'- caaUAGGCCU---------AGCGUGG--------UGGGC--UUCC- -5'
20517 3' -53.2 NC_004688.1 + 32192 0.68 0.878564
Target:  5'- --cGUCUGGccuUCGC-CCACCgCGAAGa -3'
miRNA:   3'- caaUAGGCCu--AGCGuGGUGG-GCUUCc -5'
20517 3' -53.2 NC_004688.1 + 26085 0.69 0.860293
Target:  5'- ----gCCGGGUagaccaccgccagcCGCACCGCCCGcagcaccGGGGg -3'
miRNA:   3'- caauaGGCCUA--------------GCGUGGUGGGC-------UUCC- -5'
20517 3' -53.2 NC_004688.1 + 29895 0.69 0.839082
Target:  5'- --cGUCCGGggCGUACuCACCCuucGGGu -3'
miRNA:   3'- caaUAGGCCuaGCGUG-GUGGGcu-UCC- -5'
20517 3' -53.2 NC_004688.1 + 17674 0.69 0.839082
Target:  5'- ---uUCCGGcgCGgGCCGCuuGgcGGg -3'
miRNA:   3'- caauAGGCCuaGCgUGGUGggCuuCC- -5'
20517 3' -53.2 NC_004688.1 + 53523 0.7 0.821842
Target:  5'- -----gCGGG-CGcCGCUACCCGAGGGg -3'
miRNA:   3'- caauagGCCUaGC-GUGGUGGGCUUCC- -5'
20517 3' -53.2 NC_004688.1 + 26338 0.7 0.812942
Target:  5'- ----cCUGGAUgGCAgCGCCCGcAAGGc -3'
miRNA:   3'- caauaGGCCUAgCGUgGUGGGC-UUCC- -5'
20517 3' -53.2 NC_004688.1 + 93504 0.7 0.812942
Target:  5'- aGUUGUCCGuAUCGCAugucCCGCCgCGGccGGGc -3'
miRNA:   3'- -CAAUAGGCcUAGCGU----GGUGG-GCU--UCC- -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.