miRNA display CGI


Results 1 - 20 of 76 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
2765 3' -49.9 NC_001491.2 + 145798 0.77 0.688441
Target:  5'- cGCUGGUAGAcGCC-C-GggGCGCACg -3'
miRNA:   3'- -CGACCGUUUuUGGaGaCuuCGCGUGg -5'
2765 3' -49.9 NC_001491.2 + 88965 0.76 0.719962
Target:  5'- uGCUgGGCAggGAGACCguccaguauUUUGAAGCGCugCg -3'
miRNA:   3'- -CGA-CCGU--UUUUGG---------AGACUUCGCGugG- -5'
2765 3' -49.9 NC_001491.2 + 5679 0.76 0.724115
Target:  5'- gGCUGGgAAAAGCCg--GAgccggaaaacgugccGGCGCGCCa -3'
miRNA:   3'- -CGACCgUUUUUGGagaCU---------------UCGCGUGG- -5'
2765 3' -49.9 NC_001491.2 + 5112 0.75 0.750739
Target:  5'- uGCgaGGCGAAAACCUCcuaGAGGCGC-UCg -3'
miRNA:   3'- -CGa-CCGUUUUUGGAGa--CUUCGCGuGG- -5'
2765 3' -49.9 NC_001491.2 + 117595 0.75 0.750739
Target:  5'- uCUGGCGGGAGCgUC-GAAGCGCAa- -3'
miRNA:   3'- cGACCGUUUUUGgAGaCUUCGCGUgg -5'
2765 3' -49.9 NC_001491.2 + 44574 0.75 0.780483
Target:  5'- cGCUGGCG---GCCUUUGAAGUGgAUUg -3'
miRNA:   3'- -CGACCGUuuuUGGAGACUUCGCgUGG- -5'
2765 3' -49.9 NC_001491.2 + 44511 0.75 0.780483
Target:  5'- cGCUGGCG---GCCUUUGAAGUGgAUUg -3'
miRNA:   3'- -CGACCGUuuuUGGAGACUUCGCgUGG- -5'
2765 3' -49.9 NC_001491.2 + 44386 0.75 0.780483
Target:  5'- cGCUGGCG---GCCUUUGAAGUGgAUUg -3'
miRNA:   3'- -CGACCGUuuuUGGAGACUUCGCgUGG- -5'
2765 3' -49.9 NC_001491.2 + 97669 0.74 0.799598
Target:  5'- cCUGGCGAGAGacgauCCUgUGGAGCuaGCCg -3'
miRNA:   3'- cGACCGUUUUU-----GGAgACUUCGcgUGG- -5'
2765 3' -49.9 NC_001491.2 + 14184 0.74 0.835755
Target:  5'- --gGGCGGGAACCUCUGGgaAGgGCucgucGCCa -3'
miRNA:   3'- cgaCCGUUUUUGGAGACU--UCgCG-----UGG- -5'
2765 3' -49.9 NC_001491.2 + 79636 0.73 0.844308
Target:  5'- aGUUGGCG----UCUCUGAA-CGCACCa -3'
miRNA:   3'- -CGACCGUuuuuGGAGACUUcGCGUGG- -5'
2765 3' -49.9 NC_001491.2 + 148781 0.73 0.860769
Target:  5'- gGCUcGGCGgcggGGAGCCUCggUGAugGGCaGCACCa -3'
miRNA:   3'- -CGA-CCGU----UUUUGGAG--ACU--UCG-CGUGG- -5'
2765 3' -49.9 NC_001491.2 + 70312 0.73 0.860769
Target:  5'- gGCgUGGUAAAGcGgCUCUGGuAGUGCGCCg -3'
miRNA:   3'- -CG-ACCGUUUU-UgGAGACU-UCGCGUGG- -5'
2765 3' -49.9 NC_001491.2 + 145976 0.71 0.922976
Target:  5'- --cGGCAcgAAGACCgguaCUGggGCcuGCGCCu -3'
miRNA:   3'- cgaCCGU--UUUUGGa---GACuuCG--CGUGG- -5'
2765 3' -49.9 NC_001491.2 + 89066 0.71 0.931856
Target:  5'- cGCUGGUAGGcuucuuccaauugcAGCCUCUGgcGCcuagaccGUGCCg -3'
miRNA:   3'- -CGACCGUUU--------------UUGGAGACuuCG-------CGUGG- -5'
2765 3' -49.9 NC_001491.2 + 43167 0.71 0.933971
Target:  5'- uGCUGaCuAAAGGCCUCUGGcugcAGCGCuucCCa -3'
miRNA:   3'- -CGACcG-UUUUUGGAGACU----UCGCGu--GG- -5'
2765 3' -49.9 NC_001491.2 + 18301 0.71 0.939075
Target:  5'- gGUUGGCAGcaggcACCccUUGAcAGCGCGCCg -3'
miRNA:   3'- -CGACCGUUuu---UGGa-GACU-UCGCGUGG- -5'
2765 3' -49.9 NC_001491.2 + 13920 0.7 0.948504
Target:  5'- gGCUGGCG---GCCUUgggcgGuGGCaGCGCCa -3'
miRNA:   3'- -CGACCGUuuuUGGAGa----CuUCG-CGUGG- -5'
2765 3' -49.9 NC_001491.2 + 148308 0.7 0.952833
Target:  5'- uGCUGGagguGAGGACCgcgcggCUGAGGUgGCGCUc -3'
miRNA:   3'- -CGACCg---UUUUUGGa-----GACUUCG-CGUGG- -5'
2765 3' -49.9 NC_001491.2 + 8635 0.7 0.95691
Target:  5'- cGCUGGCAuggcgcGACCUCcagcuaacGCGCACg -3'
miRNA:   3'- -CGACCGUuu----UUGGAGacuu----CGCGUGg -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.