miRNA display CGI


Results 1 - 20 of 36 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
18270 5' -54.7 NC_004681.1 + 29546 0.75 0.315725
Target:  5'- cCGGCUCGGGCaUCGCC-GCCaAGUggGCa -3'
miRNA:   3'- -GCUGAGCUUG-AGCGGuCGG-UCGaaCG- -5'
18270 5' -54.7 NC_004681.1 + 65077 0.66 0.826407
Target:  5'- -cGCUCGggUggUCGCCgaGGUCGGCcugGCa -3'
miRNA:   3'- gcUGAGCuuG--AGCGG--UCGGUCGaa-CG- -5'
18270 5' -54.7 NC_004681.1 + 53195 0.66 0.826407
Target:  5'- aCGACUaCGAGCuccguauguucaUCGCCuccGCUAGCUcagGUg -3'
miRNA:   3'- -GCUGA-GCUUG------------AGCGGu--CGGUCGAa--CG- -5'
18270 5' -54.7 NC_004681.1 + 39200 0.66 0.817369
Target:  5'- uCGACgUCGAGgaCGUCAGCCuggucgacugucAGCUcaccgUGCg -3'
miRNA:   3'- -GCUG-AGCUUgaGCGGUCGG------------UCGA-----ACG- -5'
18270 5' -54.7 NC_004681.1 + 18031 0.66 0.817369
Target:  5'- aCGGCUCGGGCaaCGCCucacGgCAGCgccGCg -3'
miRNA:   3'- -GCUGAGCUUGa-GCGGu---CgGUCGaa-CG- -5'
18270 5' -54.7 NC_004681.1 + 31969 0.66 0.816455
Target:  5'- aGAUUCuGAGCgugaaccagaucaUCGCCAGCauCGGCUcGCu -3'
miRNA:   3'- gCUGAG-CUUG-------------AGCGGUCG--GUCGAaCG- -5'
18270 5' -54.7 NC_004681.1 + 1519 0.67 0.753476
Target:  5'- cCGcUUCGGACUCaccccuggugaccggGCCAGCCuucAGCUggGCg -3'
miRNA:   3'- -GCuGAGCUUGAG---------------CGGUCGG---UCGAa-CG- -5'
18270 5' -54.7 NC_004681.1 + 61950 0.67 0.749406
Target:  5'- uCGuCaUGAACUCGCCGGgCGGCa-GCg -3'
miRNA:   3'- -GCuGaGCUUGAGCGGUCgGUCGaaCG- -5'
18270 5' -54.7 NC_004681.1 + 39884 0.68 0.716236
Target:  5'- uCGACcaggCGGGCggagacccccagCGCgCGGCCAGCU-GCg -3'
miRNA:   3'- -GCUGa---GCUUGa-----------GCG-GUCGGUCGAaCG- -5'
18270 5' -54.7 NC_004681.1 + 29749 0.68 0.69613
Target:  5'- aGAUgUCGAGCgcuuccgCGaCCugcugccaggugcAGCCAGCUUGCa -3'
miRNA:   3'- gCUG-AGCUUGa------GC-GG-------------UCGGUCGAACG- -5'
18270 5' -54.7 NC_004681.1 + 10453 0.69 0.643452
Target:  5'- gCGGCguUCGAuCUCGCCAaCCuGCUUGg -3'
miRNA:   3'- -GCUG--AGCUuGAGCGGUcGGuCGAACg -5'
18270 5' -54.7 NC_004681.1 + 67138 0.69 0.632634
Target:  5'- gCGugUUGGuGCUggagauggUGCCAGUgAGCUUGCg -3'
miRNA:   3'- -GCugAGCU-UGA--------GCGGUCGgUCGAACG- -5'
18270 5' -54.7 NC_004681.1 + 60683 0.7 0.620734
Target:  5'- gCGGCcucgUCGAGCaccacguUCGUCGGCCAGCggcccgagGCg -3'
miRNA:   3'- -GCUG----AGCUUG-------AGCGGUCGGUCGaa------CG- -5'
18270 5' -54.7 NC_004681.1 + 50666 0.7 0.611006
Target:  5'- cCGGCgUUGggUuUCGCCAGCCAcaGCUUcaGCg -3'
miRNA:   3'- -GCUG-AGCuuG-AGCGGUCGGU--CGAA--CG- -5'
18270 5' -54.7 NC_004681.1 + 50990 0.7 0.568029
Target:  5'- cCGACUCGAguauugGCagGCC-GCCuGCUUGUc -3'
miRNA:   3'- -GCUGAGCU------UGagCGGuCGGuCGAACG- -5'
18270 5' -54.7 NC_004681.1 + 61175 0.71 0.546811
Target:  5'- -aGCUCGGGgUCGgCGGUCAGCgUGCc -3'
miRNA:   3'- gcUGAGCUUgAGCgGUCGGUCGaACG- -5'
18270 5' -54.7 NC_004681.1 + 48328 0.72 0.465013
Target:  5'- gGACUggCGAGCcUCGgCgagGGCCAGCUUGUa -3'
miRNA:   3'- gCUGA--GCUUG-AGCgG---UCGGUCGAACG- -5'
18270 5' -54.7 NC_004681.1 + 6321 0.73 0.417235
Target:  5'- uCGACUCGGACuUCGCCucCCAGUcggGCu -3'
miRNA:   3'- -GCUGAGCUUG-AGCGGucGGUCGaa-CG- -5'
18270 5' -54.7 NC_004681.1 + 67367 0.74 0.402589
Target:  5'- aCGACggaGAACUCGgCguugcggugcggcggGGCCAGCUUGUu -3'
miRNA:   3'- -GCUGag-CUUGAGCgG---------------UCGGUCGAACG- -5'
18270 5' -54.7 NC_004681.1 + 27261 0.66 0.835246
Target:  5'- uCGugUCGAugUUggaguacccguaGCCcGCCGagaacGCUUGCa -3'
miRNA:   3'- -GCugAGCUugAG------------CGGuCGGU-----CGAACG- -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.