miRNA display CGI


Results 1 - 20 of 22 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
12182 3' -58.8 NC_003309.1 + 11462 0.66 0.497867
Target:  5'- aGUUCGCACgUAGuUCGucGCCGC-CGUCu -3'
miRNA:   3'- aCGAGCGUG-GUC-AGCu-CGGUGcGCAG- -5'
12182 3' -58.8 NC_003309.1 + 2469 0.66 0.487721
Target:  5'- cGaCUCGCGCagcgCGAGCCGcCGCGa- -3'
miRNA:   3'- aC-GAGCGUGgucaGCUCGGU-GCGCag -5'
12182 3' -58.8 NC_003309.1 + 39961 0.66 0.487721
Target:  5'- cGCggCGCGCUuGUCGAGCaccuguuGCGCGa- -3'
miRNA:   3'- aCGa-GCGUGGuCAGCUCGg------UGCGCag -5'
12182 3' -58.8 NC_003309.1 + 4871 0.67 0.467728
Target:  5'- cGCUUGCACCcgcuGaUUGAcgGCUGCGCGUUc -3'
miRNA:   3'- aCGAGCGUGGu---C-AGCU--CGGUGCGCAG- -5'
12182 3' -58.8 NC_003309.1 + 53262 0.67 0.448166
Target:  5'- cGCUCGCGCgCcGUCuucGCCGCGUGa- -3'
miRNA:   3'- aCGAGCGUG-GuCAGcu-CGGUGCGCag -5'
12182 3' -58.8 NC_003309.1 + 5477 0.67 0.4472
Target:  5'- uUGCgaUCGCACCAG-CGcGGCCAucuucuuCGcCGUCa -3'
miRNA:   3'- -ACG--AGCGUGGUCaGC-UCGGU-------GC-GCAG- -5'
12182 3' -58.8 NC_003309.1 + 15587 0.67 0.438556
Target:  5'- uUGCUgGcCACCgaAGUCGAGCgGCGaCGa- -3'
miRNA:   3'- -ACGAgC-GUGG--UCAGCUCGgUGC-GCag -5'
12182 3' -58.8 NC_003309.1 + 3487 0.67 0.429065
Target:  5'- cUGCUUGCGCUccgCGgcagcaaaaGGUCGCGCGUCu -3'
miRNA:   3'- -ACGAGCGUGGucaGC---------UCGGUGCGCAG- -5'
12182 3' -58.8 NC_003309.1 + 6682 0.68 0.410453
Target:  5'- aGCUCgaaaGCGCCugcGUCGAGCguCGuUGUCg -3'
miRNA:   3'- aCGAG----CGUGGu--CAGCUCGguGC-GCAG- -5'
12182 3' -58.8 NC_003309.1 + 48116 0.68 0.400432
Target:  5'- cGCUCGCGCUuacuGUCGAacuugauGCCGuCGUGcUCg -3'
miRNA:   3'- aCGAGCGUGGu---CAGCU-------CGGU-GCGC-AG- -5'
12182 3' -58.8 NC_003309.1 + 43687 0.68 0.374775
Target:  5'- aGCgcgCGCGCCAGaUCGAacacGCCGaccaGCGUg -3'
miRNA:   3'- aCGa--GCGUGGUC-AGCU----CGGUg---CGCAg -5'
12182 3' -58.8 NC_003309.1 + 35670 0.69 0.357741
Target:  5'- cUGCUCGCACCGcgCGAGauCCAgCGCGa- -3'
miRNA:   3'- -ACGAGCGUGGUcaGCUC--GGU-GCGCag -5'
12182 3' -58.8 NC_003309.1 + 9540 0.69 0.34943
Target:  5'- cGCggaucgaacugCGCGCCGcGUCGAGCgCGCGCa-- -3'
miRNA:   3'- aCGa----------GCGUGGU-CAGCUCG-GUGCGcag -5'
12182 3' -58.8 NC_003309.1 + 16192 0.69 0.341257
Target:  5'- -aCUCGCACCAGUCGucgacGCCGaucgaucCGUCg -3'
miRNA:   3'- acGAGCGUGGUCAGCu----CGGUgc-----GCAG- -5'
12182 3' -58.8 NC_003309.1 + 1703 0.69 0.325329
Target:  5'- aGCUugCGCGCCAuGUCGAGCgcgagCACGCa-- -3'
miRNA:   3'- aCGA--GCGUGGU-CAGCUCG-----GUGCGcag -5'
12182 3' -58.8 NC_003309.1 + 11877 0.7 0.30996
Target:  5'- cUGCUgauuCAUCAGcgCGAGCuCGCGCGUCa -3'
miRNA:   3'- -ACGAgc--GUGGUCa-GCUCG-GUGCGCAG- -5'
12182 3' -58.8 NC_003309.1 + 515 0.7 0.295151
Target:  5'- gGCUCGC-CgGGUCGAGCCccagcauUGCGcCg -3'
miRNA:   3'- aCGAGCGuGgUCAGCUCGGu------GCGCaG- -5'
12182 3' -58.8 NC_003309.1 + 31426 0.71 0.241422
Target:  5'- cGCUCGCuggcgACCAGUgCGcAGCCGCcgGCGUg -3'
miRNA:   3'- aCGAGCG-----UGGUCA-GC-UCGGUG--CGCAg -5'
12182 3' -58.8 NC_003309.1 + 7812 0.73 0.176346
Target:  5'- gGCgaGCGCCAuGUCGAGCgcgccauguaCGCGCGUCa -3'
miRNA:   3'- aCGagCGUGGU-CAGCUCG----------GUGCGCAG- -5'
12182 3' -58.8 NC_003309.1 + 21988 0.74 0.15416
Target:  5'- gUGCUCGaugaGCCGuugcUCGAGCCGCGCG-Cg -3'
miRNA:   3'- -ACGAGCg---UGGUc---AGCUCGGUGCGCaG- -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.