miRNA display CGI


Results 1 - 20 of 38 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
18144 5' -62.1 NC_004680.1 + 14611 0.66 0.38645
Target:  5'- cCCCGCgaAGUCGCCuggcgAACCggcgCAGCAGUUc -3'
miRNA:   3'- -GGGCGg-UCGGCGG-----UUGGg---GUCGUCAA- -5'
18144 5' -62.1 NC_004680.1 + 49985 0.66 0.377882
Target:  5'- cCCCGCCG--CGC--ACCCUGGCAGUg -3'
miRNA:   3'- -GGGCGGUcgGCGguUGGGGUCGUCAa -5'
18144 5' -62.1 NC_004680.1 + 12539 0.66 0.377882
Target:  5'- aCCggcaGCCaucgGGCCGCCGccACCaCCGGUGGUg -3'
miRNA:   3'- -GGg---CGG----UCGGCGGU--UGG-GGUCGUCAa -5'
18144 5' -62.1 NC_004680.1 + 16754 0.66 0.375336
Target:  5'- aCCGCCcugcGGCCG-CAACUggaggaucgccgcgCCAGCAGUc -3'
miRNA:   3'- gGGCGG----UCGGCgGUUGG--------------GGUCGUCAa -5'
18144 5' -62.1 NC_004680.1 + 18343 0.66 0.369441
Target:  5'- aCCGgguuuGCaCGCCAgucACCCCGGCAGg- -3'
miRNA:   3'- gGGCggu--CG-GCGGU---UGGGGUCGUCaa -5'
18144 5' -62.1 NC_004680.1 + 57168 0.66 0.361131
Target:  5'- cCCCGgC-GCCGCCGagaacGCCCacgAGCAGa- -3'
miRNA:   3'- -GGGCgGuCGGCGGU-----UGGGg--UCGUCaa -5'
18144 5' -62.1 NC_004680.1 + 48149 0.66 0.352952
Target:  5'- gCCCG-UAGCCGCUAACUCC-GCAu-- -3'
miRNA:   3'- -GGGCgGUCGGCGGUUGGGGuCGUcaa -5'
18144 5' -62.1 NC_004680.1 + 9658 0.66 0.33699
Target:  5'- gCgGCCAGCagccgaacCGCCAcgcGCCCCAGCc--- -3'
miRNA:   3'- gGgCGGUCG--------GCGGU---UGGGGUCGucaa -5'
18144 5' -62.1 NC_004680.1 + 26872 0.67 0.329209
Target:  5'- aUCGCCGauGCCgguGCCGACCUCGGUGGa- -3'
miRNA:   3'- gGGCGGU--CGG---CGGUUGGGGUCGUCaa -5'
18144 5' -62.1 NC_004680.1 + 55783 0.67 0.321561
Target:  5'- gCUCGCCaaAGCCGCC-ACCCUcGCGa-- -3'
miRNA:   3'- -GGGCGG--UCGGCGGuUGGGGuCGUcaa -5'
18144 5' -62.1 NC_004680.1 + 3525 0.67 0.314047
Target:  5'- aCUCGCCGGCCGCCuuAGCCagagaugcuGCGGa- -3'
miRNA:   3'- -GGGCGGUCGGCGG--UUGGggu------CGUCaa -5'
18144 5' -62.1 NC_004680.1 + 12428 0.67 0.306666
Target:  5'- aCCCaGCCccGCUGCCcACCaCCGGUGGUg -3'
miRNA:   3'- -GGG-CGGu-CGGCGGuUGG-GGUCGUCAa -5'
18144 5' -62.1 NC_004680.1 + 25632 0.67 0.306666
Target:  5'- cCCCGCC-GUCGCCGACgCC-GCAc-- -3'
miRNA:   3'- -GGGCGGuCGGCGGUUGgGGuCGUcaa -5'
18144 5' -62.1 NC_004680.1 + 55051 0.67 0.306666
Target:  5'- aCCCGCCA-CCgaucguGCCGGCCCCGuccuGCAaGUUg -3'
miRNA:   3'- -GGGCGGUcGG------CGGUUGGGGU----CGU-CAA- -5'
18144 5' -62.1 NC_004680.1 + 19670 0.67 0.306666
Target:  5'- aCCCGCCGcGCCGC---CCUCAGCGa-- -3'
miRNA:   3'- -GGGCGGU-CGGCGguuGGGGUCGUcaa -5'
18144 5' -62.1 NC_004680.1 + 17043 0.67 0.299419
Target:  5'- aCCCGUCAGCgGUCGaguucACCaCCGGCAc-- -3'
miRNA:   3'- -GGGCGGUCGgCGGU-----UGG-GGUCGUcaa -5'
18144 5' -62.1 NC_004680.1 + 41329 0.67 0.299419
Target:  5'- gCCGCCGGCaucaUCGGCCCCGGCc--- -3'
miRNA:   3'- gGGCGGUCGgc--GGUUGGGGUCGucaa -5'
18144 5' -62.1 NC_004680.1 + 27340 0.68 0.285324
Target:  5'- gCCGCC-GCCGCCu-UCCUGGguGUg -3'
miRNA:   3'- gGGCGGuCGGCGGuuGGGGUCguCAa -5'
18144 5' -62.1 NC_004680.1 + 58294 0.68 0.278475
Target:  5'- aUCGCCAaaGCCGCCGACaCCaCAGCc--- -3'
miRNA:   3'- gGGCGGU--CGGCGGUUG-GG-GUCGucaa -5'
18144 5' -62.1 NC_004680.1 + 25537 0.68 0.265171
Target:  5'- cCCCGCCAcGCgGCCcACCCCcacaAGgAGg- -3'
miRNA:   3'- -GGGCGGU-CGgCGGuUGGGG----UCgUCaa -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.