miRNA display CGI


Results 1 - 18 of 18 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
20480 5' -53.1 NC_004688.1 + 6327 0.66 0.967467
Target:  5'- gCGAUAACCcaggcCGGGGUuggccaucgcccaguAcUGGGGAUCGc -3'
miRNA:   3'- -GCUGUUGGu----GCCCCA---------------U-ACUCCUAGCc -5'
20480 5' -53.1 NC_004688.1 + 65954 0.66 0.96281
Target:  5'- -uGCGGCUugGGGGaauUGGGGGUgaGGu -3'
miRNA:   3'- gcUGUUGGugCCCCau-ACUCCUAg-CC- -5'
20480 5' -53.1 NC_004688.1 + 7996 0.66 0.95538
Target:  5'- cCGACAucACCGCGGGG----AGGcGUCGa -3'
miRNA:   3'- -GCUGU--UGGUGCCCCauacUCC-UAGCc -5'
20480 5' -53.1 NC_004688.1 + 10632 0.66 0.95538
Target:  5'- gCGGCcugGAUCGCGGucgaGGUgccgGUGAGGAucuUCGGg -3'
miRNA:   3'- -GCUG---UUGGUGCC----CCA----UACUCCU---AGCC- -5'
20480 5' -53.1 NC_004688.1 + 35260 0.66 0.951312
Target:  5'- -cGCGGCCGgGGGGUugGAGGuauUCGa -3'
miRNA:   3'- gcUGUUGGUgCCCCAuaCUCCu--AGCc -5'
20480 5' -53.1 NC_004688.1 + 46067 0.67 0.946112
Target:  5'- aCGACGugccGCgGCGGGGccguUAUGAGGugugacaagugCGGg -3'
miRNA:   3'- -GCUGU----UGgUGCCCC----AUACUCCua---------GCC- -5'
20480 5' -53.1 NC_004688.1 + 41795 0.67 0.932602
Target:  5'- uGACcGCguUGGGGUccuccGGGAUCGGg -3'
miRNA:   3'- gCUGuUGguGCCCCAuac--UCCUAGCC- -5'
20480 5' -53.1 NC_004688.1 + 43940 0.67 0.927303
Target:  5'- uGACGGCgGCGGGGUA-GuuGAUCc- -3'
miRNA:   3'- gCUGUUGgUGCCCCAUaCucCUAGcc -5'
20480 5' -53.1 NC_004688.1 + 8570 0.67 0.921755
Target:  5'- gGACcuCCAUGcGGUccAUGGGGAUCGa -3'
miRNA:   3'- gCUGuuGGUGCcCCA--UACUCCUAGCc -5'
20480 5' -53.1 NC_004688.1 + 78886 0.68 0.897076
Target:  5'- uGACGgaGCCACGGGGagccccAGGA-CGGa -3'
miRNA:   3'- gCUGU--UGGUGCCCCauac--UCCUaGCC- -5'
20480 5' -53.1 NC_004688.1 + 36079 0.7 0.844803
Target:  5'- aCGGCGGCCAugccgaucuCGGGG-GUGAGGGUg-- -3'
miRNA:   3'- -GCUGUUGGU---------GCCCCaUACUCCUAgcc -5'
20480 5' -53.1 NC_004688.1 + 78940 0.7 0.842325
Target:  5'- uCGACcgcugagcuGCCGCGGacggucggcugcaaGGUA-GAGGAUCGGc -3'
miRNA:   3'- -GCUGu--------UGGUGCC--------------CCAUaCUCCUAGCC- -5'
20480 5' -53.1 NC_004688.1 + 54233 0.71 0.763565
Target:  5'- -cACAACguCGGGG-AUGGGGAugaaUCGGg -3'
miRNA:   3'- gcUGUUGguGCCCCaUACUCCU----AGCC- -5'
20480 5' -53.1 NC_004688.1 + 102093 0.71 0.757721
Target:  5'- cCGACAACUACGgccgaacccaucuauGGGUggGUGAGGAcuacCGGg -3'
miRNA:   3'- -GCUGUUGGUGC---------------CCCA--UACUCCUa---GCC- -5'
20480 5' -53.1 NC_004688.1 + 20037 0.72 0.727919
Target:  5'- gCGGCAGCUuccggaacgaagccgGCGGGGaugAUGGGGGcgccgUCGGg -3'
miRNA:   3'- -GCUGUUGG---------------UGCCCCa--UACUCCU-----AGCC- -5'
20480 5' -53.1 NC_004688.1 + 39781 0.72 0.703502
Target:  5'- -uGCGACUGCGGGG-GUGAGGAgugCGa -3'
miRNA:   3'- gcUGUUGGUGCCCCaUACUCCUa--GCc -5'
20480 5' -53.1 NC_004688.1 + 53982 0.77 0.468351
Target:  5'- uGGCAGCUccaggcccucuGCGGGGUucuUGAGGAUgCGGu -3'
miRNA:   3'- gCUGUUGG-----------UGCCCCAu--ACUCCUA-GCC- -5'
20480 5' -53.1 NC_004688.1 + 45478 1.11 0.003653
Target:  5'- aCGACAACCACGGGGUAUGAGGAUCGGc -3'
miRNA:   3'- -GCUGUUGGUGCCCCAUACUCCUAGCC- -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.