miRNA display CGI


Results 21 - 36 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
31784 3' -55.6 NC_006938.1 + 29870 0.68 0.587726
Target:  5'- gGCcCCUCgGCCGAGcCGGaUGGcuGCCa -3'
miRNA:   3'- aUGaGGAGgCGGUUCaGCC-ACUu-CGG- -5'
31784 3' -55.6 NC_006938.1 + 62707 0.68 0.587726
Target:  5'- gACgUCCUCCGUCGAcccGUCauaGGUGuccAGCCg -3'
miRNA:   3'- aUG-AGGAGGCGGUU---CAG---CCACu--UCGG- -5'
31784 3' -55.6 NC_006938.1 + 19426 0.69 0.566104
Target:  5'- -cCUCCUCCGCCGcGUCcaUGAAGaaCCg -3'
miRNA:   3'- auGAGGAGGCGGUuCAGccACUUC--GG- -5'
31784 3' -55.6 NC_006938.1 + 42769 0.7 0.502731
Target:  5'- gACcCCUCCaCCuGAGgaggUGGUGGAGCCg -3'
miRNA:   3'- aUGaGGAGGcGG-UUCa---GCCACUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 27896 0.68 0.610585
Target:  5'- -cCUCUUCCGCCAcgcguacgcguucuuGUCGGgGucGCCg -3'
miRNA:   3'- auGAGGAGGCGGUu--------------CAGCCaCuuCGG- -5'
31784 3' -55.6 NC_006938.1 + 37955 0.68 0.619319
Target:  5'- cGCUUCUCCuggaucuccuggaGCCAgaGGUCaggGGUGAuGCCg -3'
miRNA:   3'- aUGAGGAGG-------------CGGU--UCAG---CCACUuCGG- -5'
31784 3' -55.6 NC_006938.1 + 20015 0.68 0.620411
Target:  5'- gAgUCCUCCacGCCGA--CGGgGAAGCCg -3'
miRNA:   3'- aUgAGGAGG--CGGUUcaGCCaCUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 45291 0.66 0.749324
Target:  5'- ---aCCUCCGUCAAGagGGUcgcGCCa -3'
miRNA:   3'- augaGGAGGCGGUUCagCCAcuuCGG- -5'
31784 3' -55.6 NC_006938.1 + 36136 0.66 0.749324
Target:  5'- -uCUCCUCCuCgAAGagGGUGGcguuGGCCu -3'
miRNA:   3'- auGAGGAGGcGgUUCagCCACU----UCGG- -5'
31784 3' -55.6 NC_006938.1 + 28568 0.66 0.746227
Target:  5'- aGCUCCUCCuucuugGCCGGGUCGaucucgaggaucuuGcUGucGCCg -3'
miRNA:   3'- aUGAGGAGG------CGGUUCAGC--------------C-ACuuCGG- -5'
31784 3' -55.6 NC_006938.1 + 48528 0.67 0.685788
Target:  5'- ---aCCUCCGCCAucuugaugCgGGUGAAGUCc -3'
miRNA:   3'- augaGGAGGCGGUuca-----G-CCACUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 16981 0.67 0.685788
Target:  5'- aGCUUCUCCGCguAGUgcUGGgccuugcgGAGGUCg -3'
miRNA:   3'- aUGAGGAGGCGguUCA--GCCa-------CUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 54484 0.67 0.685788
Target:  5'- gACUCCggCCGCgaCAGGUgGcGUGAAGUUc -3'
miRNA:   3'- aUGAGGa-GGCG--GUUCAgC-CACUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 23565 0.67 0.664087
Target:  5'- aGCUCCUCUGCCcGGUCcgagaccgacuGGUcGAuGUCg -3'
miRNA:   3'- aUGAGGAGGCGGuUCAG-----------CCA-CUuCGG- -5'
31784 3' -55.6 NC_006938.1 + 44395 0.67 0.630246
Target:  5'- -uUUUCUCCGCCAAGUagagagaUGGagGAGGUCu -3'
miRNA:   3'- auGAGGAGGCGGUUCA-------GCCa-CUUCGG- -5'
31784 3' -55.6 NC_006938.1 + 39495 0.71 0.433028
Target:  5'- gUugUCCUCCGUUGAGaagagagCGG-GGAGCCc -3'
miRNA:   3'- -AugAGGAGGCGGUUCa------GCCaCUUCGG- -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.