miRNA display CGI


Results 1 - 20 of 61 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
28795 3' -56.4 NC_006146.1 + 169174 0.66 0.910451
Target:  5'- gGCgCCUGCAGGggGgGCCGGcGG-GGc -3'
miRNA:   3'- gCG-GGACGUCCagCgCGGUUuUCaCC- -5'
28795 3' -56.4 NC_006146.1 + 168242 0.66 0.910451
Target:  5'- gGCgCCUGCAGGggGgGCCGGcGG-GGc -3'
miRNA:   3'- gCG-GGACGUCCagCgCGGUUuUCaCC- -5'
28795 3' -56.4 NC_006146.1 + 167635 0.66 0.904399
Target:  5'- gGUCCcGCGGGgcccggcgCGUGCCGGGGGcccgGGg -3'
miRNA:   3'- gCGGGaCGUCCa-------GCGCGGUUUUCa---CC- -5'
28795 3' -56.4 NC_006146.1 + 167310 0.66 0.910451
Target:  5'- gGCgCCUGCAGGggGgGCCGGcGG-GGc -3'
miRNA:   3'- gCG-GGACGUCCagCgCGGUUuUCaCC- -5'
28795 3' -56.4 NC_006146.1 + 166541 0.67 0.887602
Target:  5'- gGUCCUugGCAGGUUgguaggggucuucagGCaGCCGAAAGUGu -3'
miRNA:   3'- gCGGGA--CGUCCAG---------------CG-CGGUUUUCACc -5'
28795 3' -56.4 NC_006146.1 + 159957 0.66 0.921862
Target:  5'- aCGuCCCUGUgguaggAGGUgGCGCgCAGGAGcccgcaguUGGg -3'
miRNA:   3'- -GC-GGGACG------UCCAgCGCG-GUUUUC--------ACC- -5'
28795 3' -56.4 NC_006146.1 + 158119 0.75 0.454355
Target:  5'- cCGcCCCUGCAGGgcCGCGuCCAGguccggcaggucacAGGUGGg -3'
miRNA:   3'- -GC-GGGACGUCCa-GCGC-GGUU--------------UUCACC- -5'
28795 3' -56.4 NC_006146.1 + 156579 0.65 0.925636
Target:  5'- gGCCCUgcgugaguucuccaGCAGGU-GCGCCAGcuccAGGgacaGGg -3'
miRNA:   3'- gCGGGA--------------CGUCCAgCGCGGUU----UUCa---CC- -5'
28795 3' -56.4 NC_006146.1 + 151704 0.7 0.751623
Target:  5'- gGCCCUG-AGG-CGCGCCugcguAGAAGUaGGc -3'
miRNA:   3'- gCGGGACgUCCaGCGCGG-----UUUUCA-CC- -5'
28795 3' -56.4 NC_006146.1 + 149984 0.71 0.673054
Target:  5'- gGgCCUGCAGGUCG-GCCGGAcucAG-GGc -3'
miRNA:   3'- gCgGGACGUCCAGCgCGGUUU---UCaCC- -5'
28795 3' -56.4 NC_006146.1 + 149939 0.67 0.890949
Target:  5'- uGCCCUcgGGGUUgaggggcgcccagGCGUUggGAGUGGg -3'
miRNA:   3'- gCGGGAcgUCCAG-------------CGCGGuuUUCACC- -5'
28795 3' -56.4 NC_006146.1 + 147574 0.69 0.769487
Target:  5'- uCGgUCUGCAGGgccauacUCGCGCUc-AGGUGGa -3'
miRNA:   3'- -GCgGGACGUCC-------AGCGCGGuuUUCACC- -5'
28795 3' -56.4 NC_006146.1 + 138262 0.7 0.751623
Target:  5'- --aCCUGCAGGU-GUGuCCAcAGGUGGg -3'
miRNA:   3'- gcgGGACGUCCAgCGC-GGUuUUCACC- -5'
28795 3' -56.4 NC_006146.1 + 134719 0.67 0.882823
Target:  5'- aCGUCCUGCAGGaugcaUGCaccaggccagccagGCCAAcgcucgucccaGAGUGGg -3'
miRNA:   3'- -GCGGGACGUCCa----GCG--------------CGGUU-----------UUCACC- -5'
28795 3' -56.4 NC_006146.1 + 133417 0.69 0.787826
Target:  5'- uGUCCUGUguuuguuGGGUa--GCCAGGGGUGGa -3'
miRNA:   3'- gCGGGACG-------UCCAgcgCGGUUUUCACC- -5'
28795 3' -56.4 NC_006146.1 + 130823 0.67 0.877938
Target:  5'- aCGCgCUGCAGGcccUC-CGCCGGGAGa-- -3'
miRNA:   3'- -GCGgGACGUCC---AGcGCGGUUUUCacc -5'
28795 3' -56.4 NC_006146.1 + 128920 0.66 0.904399
Target:  5'- aGCUgUGCGGGUCGagGCCGGGAa--- -3'
miRNA:   3'- gCGGgACGUCCAGCg-CGGUUUUcacc -5'
28795 3' -56.4 NC_006146.1 + 128642 0.67 0.884884
Target:  5'- uCGCCCaGCuGaGccagcuccUCGCGCCGGAGG-GGg -3'
miRNA:   3'- -GCGGGaCGuC-C--------AGCGCGGUUUUCaCC- -5'
28795 3' -56.4 NC_006146.1 + 127577 0.68 0.815147
Target:  5'- gGCCCUGggcggccgAGGcCGCGCCGGccGGGUGa -3'
miRNA:   3'- gCGGGACg-------UCCaGCGCGGUU--UUCACc -5'
28795 3' -56.4 NC_006146.1 + 120209 0.68 0.823639
Target:  5'- aGgCCUGCcGGUCgGUGCCu---GUGGg -3'
miRNA:   3'- gCgGGACGuCCAG-CGCGGuuuuCACC- -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.