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
27207 5' -56.9 NC_005832.1 + 26333 0.66 0.830821
Target:  5'- cUCUGCCCGGuGGcCUCgccgGGGACgaugaCCg -3'
miRNA:   3'- cAGGUGGGCC-CCuGAGaa--CUCUGa----GG- -5'
27207 5' -56.9 NC_005832.1 + 19737 0.66 0.830821
Target:  5'- cGUCagGCCCaGGGGCUUUggggGAGGCagguUCCc -3'
miRNA:   3'- -CAGg-UGGGcCCCUGAGAa---CUCUG----AGG- -5'
27207 5' -56.9 NC_005832.1 + 104849 0.66 0.822272
Target:  5'- cUCCACCCaGGG-UUCagguaGAGugUCCc -3'
miRNA:   3'- cAGGUGGGcCCCuGAGaa---CUCugAGG- -5'
27207 5' -56.9 NC_005832.1 + 65378 0.66 0.822271
Target:  5'- uGUCgUACCUcaggaGGGGACcgUUGAGAgUCCa -3'
miRNA:   3'- -CAG-GUGGG-----CCCCUGagAACUCUgAGG- -5'
27207 5' -56.9 NC_005832.1 + 72559 0.66 0.80465
Target:  5'- gGUCC-CCgUGGGGACg--UGGGGCcCCu -3'
miRNA:   3'- -CAGGuGG-GCCCCUGagaACUCUGaGG- -5'
27207 5' -56.9 NC_005832.1 + 6850 0.66 0.79193
Target:  5'- aGUCCcacACCCuGGGGuaguggggGAGGCUCCu -3'
miRNA:   3'- -CAGG---UGGG-CCCCugagaa--CUCUGAGG- -5'
27207 5' -56.9 NC_005832.1 + 95922 0.67 0.757957
Target:  5'- gGUCCugCCGguccuGGGAUUCcUGguuGGAUUCCu -3'
miRNA:   3'- -CAGGugGGC-----CCCUGAGaAC---UCUGAGG- -5'
27207 5' -56.9 NC_005832.1 + 30156 0.68 0.7285
Target:  5'- cUCUACCCGGGauggaGGCUC-UGGGugUUa -3'
miRNA:   3'- cAGGUGGGCCC-----CUGAGaACUCugAGg -5'
27207 5' -56.9 NC_005832.1 + 67700 0.68 0.7285
Target:  5'- -aCCAgCUGGGGaACUCUccGGGGgUCCu -3'
miRNA:   3'- caGGUgGGCCCC-UGAGAa-CUCUgAGG- -5'
27207 5' -56.9 NC_005832.1 + 79040 0.68 0.727504
Target:  5'- cUCCACCaGGGGucuacCUCUUagguccaggcucaGGGACUCUg -3'
miRNA:   3'- cAGGUGGgCCCCu----GAGAA-------------CUCUGAGG- -5'
27207 5' -56.9 NC_005832.1 + 44649 0.68 0.708421
Target:  5'- cUCUACUCGGGcucGACgggCagGAGGCUCCc -3'
miRNA:   3'- cAGGUGGGCCC---CUGa--GaaCUCUGAGG- -5'
27207 5' -56.9 NC_005832.1 + 68903 0.68 0.688077
Target:  5'- aUCCACaacaugaCGGGGGCUCccgucguaGAGACcCCg -3'
miRNA:   3'- cAGGUGg------GCCCCUGAGaa------CUCUGaGG- -5'
27207 5' -56.9 NC_005832.1 + 7496 0.69 0.657228
Target:  5'- cUCCAcuCCCGGGGAUgaggUGAGGgaCCu -3'
miRNA:   3'- cAGGU--GGGCCCCUGaga-ACUCUgaGG- -5'
27207 5' -56.9 NC_005832.1 + 91610 0.69 0.636543
Target:  5'- -aCUGCCuuCGGGGACguc-GAGACUCCc -3'
miRNA:   3'- caGGUGG--GCCCCUGagaaCUCUGAGG- -5'
27207 5' -56.9 NC_005832.1 + 42544 0.69 0.615844
Target:  5'- aUCCGCCaCGGGGucCUCggGGGcggacgcgugcuGCUCCa -3'
miRNA:   3'- cAGGUGG-GCCCCu-GAGaaCUC------------UGAGG- -5'
27207 5' -56.9 NC_005832.1 + 8282 0.69 0.615844
Target:  5'- cGUgCACCCGGcucccgucaGGAUaUCUaGGGACUCCu -3'
miRNA:   3'- -CAgGUGGGCC---------CCUG-AGAaCUCUGAGG- -5'
27207 5' -56.9 NC_005832.1 + 6754 0.7 0.589021
Target:  5'- -aCCACCCucaaguacgagucgaGGGGAUUCgUGAGAuCUUCg -3'
miRNA:   3'- caGGUGGG---------------CCCCUGAGaACUCU-GAGG- -5'
27207 5' -56.9 NC_005832.1 + 32347 0.71 0.558345
Target:  5'- uUCCAUCCccgccggggcuggagGGGGAUcCUUGuGGGCUCCg -3'
miRNA:   3'- cAGGUGGG---------------CCCCUGaGAAC-UCUGAGG- -5'
27207 5' -56.9 NC_005832.1 + 97521 0.71 0.514247
Target:  5'- aGUCUGCUCGGucaGGCUCUUGAGACggUCg -3'
miRNA:   3'- -CAGGUGGGCCc--CUGAGAACUCUGa-GG- -5'
27207 5' -56.9 NC_005832.1 + 55663 0.73 0.438142
Target:  5'- cUCCugCCguGGGGAC---UGGGACUCCu -3'
miRNA:   3'- cAGGugGG--CCCCUGagaACUCUGAGG- -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.