miRNA display CGI


Results 1 - 20 of 49 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
11436 5' -57.2 NC_003085.1 + 12409 0.66 0.600133
Target:  5'- cUCGaCCCg-GCGGGGCcgcugcgCUCCGAGGa -3'
miRNA:   3'- -GGUcGGGagCGCCUCGua-----GAGGUUCC- -5'
11436 5' -57.2 NC_003085.1 + 33263 0.68 0.474297
Target:  5'- uUCAGUCCUCGCGcgcGAGCGUaccugUCaGAGGg -3'
miRNA:   3'- -GGUCGGGAGCGC---CUCGUAg----AGgUUCC- -5'
11436 5' -57.2 NC_003085.1 + 25925 0.68 0.483327
Target:  5'- gCguGCCCUCGUGGAgaaggcgaagacuGCGUgaagCgugCCGAGGg -3'
miRNA:   3'- -GguCGGGAGCGCCU-------------CGUA----Ga--GGUUCC- -5'
11436 5' -57.2 NC_003085.1 + 7320 0.68 0.484336
Target:  5'- aCGGCCaUCGCGGAgGCGg--CUGAGGa -3'
miRNA:   3'- gGUCGGgAGCGCCU-CGUagaGGUUCC- -5'
11436 5' -57.2 NC_003085.1 + 5801 0.68 0.494475
Target:  5'- -uGGCCUUCGuCGGAGCGgugCgcaUCGGGGa -3'
miRNA:   3'- ggUCGGGAGC-GCCUCGUa--Ga--GGUUCC- -5'
11436 5' -57.2 NC_003085.1 + 19691 0.67 0.524401
Target:  5'- gCGGCCCUggaggcgCGCGGcGGCAUCUgCAc-- -3'
miRNA:   3'- gGUCGGGA-------GCGCC-UCGUAGAgGUucc -5'
11436 5' -57.2 NC_003085.1 + 29967 0.67 0.546494
Target:  5'- gCAGCCCUC-CGGcaAGCAgucaUCCAccggauGGGg -3'
miRNA:   3'- gGUCGGGAGcGCC--UCGUag--AGGU------UCC- -5'
11436 5' -57.2 NC_003085.1 + 27522 0.66 0.57854
Target:  5'- gCCGGCauggaugacucCCUCGUGGc-CAUCUCCGGcGGc -3'
miRNA:   3'- -GGUCG-----------GGAGCGCCucGUAGAGGUU-CC- -5'
11436 5' -57.2 NC_003085.1 + 25753 0.66 0.589319
Target:  5'- gCCAGUacgaggcauuCCUCGCGG-GCAagUCCGAc- -3'
miRNA:   3'- -GGUCG----------GGAGCGCCuCGUagAGGUUcc -5'
11436 5' -57.2 NC_003085.1 + 24806 0.68 0.473299
Target:  5'- cUCAGCCCgUCGCGGcGCGcggCUuucaaccaggacgCCGAGGc -3'
miRNA:   3'- -GGUCGGG-AGCGCCuCGUa--GA-------------GGUUCC- -5'
11436 5' -57.2 NC_003085.1 + 7424 0.68 0.473299
Target:  5'- -gGGCCCUCcCGGGaagacgcGCGUCUCCAu-- -3'
miRNA:   3'- ggUCGGGAGcGCCU-------CGUAGAGGUucc -5'
11436 5' -57.2 NC_003085.1 + 27910 0.68 0.464364
Target:  5'- -uGGCCCUCGCGGGccgcGCGUggUUCCGGuaccGGa -3'
miRNA:   3'- ggUCGGGAGCGCCU----CGUA--GAGGUU----CC- -5'
11436 5' -57.2 NC_003085.1 + 42867 0.72 0.292322
Target:  5'- cCCGGCCCggcCG-GGGGCGUgUCgAGGGu -3'
miRNA:   3'- -GGUCGGGa--GCgCCUCGUAgAGgUUCC- -5'
11436 5' -57.2 NC_003085.1 + 45843 0.71 0.30706
Target:  5'- gCCAGCCagUCGCGGcGCAcgUCCAGGcGg -3'
miRNA:   3'- -GGUCGGg-AGCGCCuCGUagAGGUUC-C- -5'
11436 5' -57.2 NC_003085.1 + 47818 0.71 0.339029
Target:  5'- gCCAGCCCagacgUUGCGGuugugccagucguccGCGUCaUCCGGGGu -3'
miRNA:   3'- -GGUCGGG-----AGCGCCu--------------CGUAG-AGGUUCC- -5'
11436 5' -57.2 NC_003085.1 + 29416 0.7 0.380313
Target:  5'- gCCAGCCCaUgGCGGAGgcuCAggcgCUgCAAGGc -3'
miRNA:   3'- -GGUCGGG-AgCGCCUC---GUa---GAgGUUCC- -5'
11436 5' -57.2 NC_003085.1 + 40664 0.7 0.380313
Target:  5'- gCCGcGCaaCCUCGCGGAGCcgCcggCgCAGGGg -3'
miRNA:   3'- -GGU-CG--GGAGCGCCUCGuaGa--G-GUUCC- -5'
11436 5' -57.2 NC_003085.1 + 49139 0.69 0.398102
Target:  5'- --cGUCCUCGUccucuccGAGCAUCUCCAugAGGu -3'
miRNA:   3'- gguCGGGAGCGc------CUCGUAGAGGU--UCC- -5'
11436 5' -57.2 NC_003085.1 + 11639 0.69 0.425765
Target:  5'- aCCAGCgCgCGCGGAggGCAUUgcgccggguggCCGAGGa -3'
miRNA:   3'- -GGUCGgGaGCGCCU--CGUAGa----------GGUUCC- -5'
11436 5' -57.2 NC_003085.1 + 45297 0.68 0.45454
Target:  5'- uCCGGuCCUUCGuCGGAgGCGUgguUUUCAAGGg -3'
miRNA:   3'- -GGUC-GGGAGC-GCCU-CGUA---GAGGUUCC- -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.