miRNA display CGI


Results 1 - 17 of 17 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
10339 3' -50.6 NC_002687.1 + 204240 0.66 0.999759
Target:  5'- -cGUCugCGGACGAgucgUGCACCGUGa--- -3'
miRNA:   3'- uuCAG--GCUUGCUa---ACGUGGCAUacgu -5'
10339 3' -50.6 NC_002687.1 + 38879 0.66 0.999697
Target:  5'- aAGGUCgCGGuuauCGAggGCACCGgugGCGg -3'
miRNA:   3'- -UUCAG-GCUu---GCUaaCGUGGCauaCGU- -5'
10339 3' -50.6 NC_002687.1 + 216669 0.66 0.999697
Target:  5'- ---cCCGaAGCGuuUUGCGCCGUcgGCu -3'
miRNA:   3'- uucaGGC-UUGCu-AACGUGGCAuaCGu -5'
10339 3' -50.6 NC_002687.1 + 131038 0.66 0.999622
Target:  5'- gGAGUagcucCCGGACGAUgccgaUGaCACgGUGUGCu -3'
miRNA:   3'- -UUCA-----GGCUUGCUA-----AC-GUGgCAUACGu -5'
10339 3' -50.6 NC_002687.1 + 212188 0.66 0.999531
Target:  5'- -uGUCgaCGGcCGAgUGUACCGUGUGCu -3'
miRNA:   3'- uuCAG--GCUuGCUaACGUGGCAUACGu -5'
10339 3' -50.6 NC_002687.1 + 297812 0.67 0.999135
Target:  5'- ---cCCGAACGcUUGCGCUGaccuUGUGCGu -3'
miRNA:   3'- uucaGGCUUGCuAACGUGGC----AUACGU- -5'
10339 3' -50.6 NC_002687.1 + 244649 0.67 0.999135
Target:  5'- cGGGUUCGAcACcaGUUGCACCGUauuuguugcGUGCAa -3'
miRNA:   3'- -UUCAGGCU-UGc-UAACGUGGCA---------UACGU- -5'
10339 3' -50.6 NC_002687.1 + 318004 0.67 0.999118
Target:  5'- uGGUCauggacaUGGACGAcUGCACCGaGUGCc -3'
miRNA:   3'- uUCAG-------GCUUGCUaACGUGGCaUACGu -5'
10339 3' -50.6 NC_002687.1 + 169693 0.67 0.9991
Target:  5'- cGAGUCgUGAAaaaaaagcaggaGGUUGCACCGU-UGCAg -3'
miRNA:   3'- -UUCAG-GCUUg-----------CUAACGUGGCAuACGU- -5'
10339 3' -50.6 NC_002687.1 + 325380 0.67 0.99895
Target:  5'- ---aCCGAaaACGAUUGCACgCGcugucgGUGCAa -3'
miRNA:   3'- uucaGGCU--UGCUAACGUG-GCa-----UACGU- -5'
10339 3' -50.6 NC_002687.1 + 275214 0.67 0.998734
Target:  5'- aGAGUCCauuGCGGUUGCAgUGUggGUAu -3'
miRNA:   3'- -UUCAGGcu-UGCUAACGUgGCAuaCGU- -5'
10339 3' -50.6 NC_002687.1 + 55176 0.67 0.99848
Target:  5'- --aUCCGGAUGGUUGCACgGgagccagGCAc -3'
miRNA:   3'- uucAGGCUUGCUAACGUGgCaua----CGU- -5'
10339 3' -50.6 NC_002687.1 + 150053 0.67 0.998184
Target:  5'- -uGUCCG-ACGAggGUACCGggaGCAa -3'
miRNA:   3'- uuCAGGCuUGCUaaCGUGGCauaCGU- -5'
10339 3' -50.6 NC_002687.1 + 249637 0.7 0.990438
Target:  5'- aGGGUCCGAGCcuuGAUUGUcuuGCCG-AUGCc -3'
miRNA:   3'- -UUCAGGCUUG---CUAACG---UGGCaUACGu -5'
10339 3' -50.6 NC_002687.1 + 10266 0.72 0.964285
Target:  5'- -uGUCUGGGCGccagUGUACuCGUGUGCAg -3'
miRNA:   3'- uuCAGGCUUGCua--ACGUG-GCAUACGU- -5'
10339 3' -50.6 NC_002687.1 + 41980 0.76 0.86753
Target:  5'- -uGUCaCGAACGGUUgGCACCGUccGCGa -3'
miRNA:   3'- uuCAG-GCUUGCUAA-CGUGGCAuaCGU- -5'
10339 3' -50.6 NC_002687.1 + 140171 1.07 0.024146
Target:  5'- aAAGUCCGAACGAUUGCACCGUAUGCAg -3'
miRNA:   3'- -UUCAGGCUUGCUAACGUGGCAUACGU- -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.