miRNA display CGI


Results 1 - 20 of 23 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
18583 3' -59.7 NC_004682.1 + 35930 0.66 0.431301
Target:  5'- uUGCGGUagaacuGCUuuGCGGCCUCGCCGccGCa -3'
miRNA:   3'- cAUGCCA------CGGc-UGUCGGAGCGGU--CGa -5'
18583 3' -59.7 NC_004682.1 + 38026 0.66 0.421892
Target:  5'- --uCGGUGCCGAgGuGCCUcagCGCCgacAGCg -3'
miRNA:   3'- cauGCCACGGCUgU-CGGA---GCGG---UCGa -5'
18583 3' -59.7 NC_004682.1 + 27399 0.67 0.385526
Target:  5'- gGUACGGgugGCCacgGGCGGCacaaUCGCCgucGGCg -3'
miRNA:   3'- -CAUGCCa--CGG---CUGUCGg---AGCGG---UCGa -5'
18583 3' -59.7 NC_004682.1 + 35499 0.67 0.384643
Target:  5'- uUGCGGaGCaCGACGGCgUCGucgccucCCAGCUc -3'
miRNA:   3'- cAUGCCaCG-GCUGUCGgAGC-------GGUCGA- -5'
18583 3' -59.7 NC_004682.1 + 11797 0.67 0.376763
Target:  5'- --cCGGUGCCGucuCGGCgUCGuggaCCGGCg -3'
miRNA:   3'- cauGCCACGGCu--GUCGgAGC----GGUCGa -5'
18583 3' -59.7 NC_004682.1 + 44537 0.67 0.368136
Target:  5'- uGUcCGGUGCCGugGaCCgugaacaGCCAGCg -3'
miRNA:   3'- -CAuGCCACGGCugUcGGag-----CGGUCGa -5'
18583 3' -59.7 NC_004682.1 + 49364 0.67 0.359645
Target:  5'- aGUACagGGUGCCugccgggaaguuGACGGgCUCGCC-GCUg -3'
miRNA:   3'- -CAUG--CCACGG------------CUGUCgGAGCGGuCGA- -5'
18583 3' -59.7 NC_004682.1 + 39013 0.67 0.359645
Target:  5'- --uUGGUGaUCGGCuugcgcucGGCCUCGCCGGUc -3'
miRNA:   3'- cauGCCAC-GGCUG--------UCGGAGCGGUCGa -5'
18583 3' -59.7 NC_004682.1 + 47179 0.68 0.351292
Target:  5'- cGU-CGGUGCC----GCCUCGUCGGCg -3'
miRNA:   3'- -CAuGCCACGGcuguCGGAGCGGUCGa -5'
18583 3' -59.7 NC_004682.1 + 43009 0.68 0.351292
Target:  5'- --cCGGUGUCGACcGCCUUGCCcGaCa -3'
miRNA:   3'- cauGCCACGGCUGuCGGAGCGGuC-Ga -5'
18583 3' -59.7 NC_004682.1 + 47700 0.68 0.351292
Target:  5'- -gGCGGcUGCUGcGCcGCCUgCGCCAGUg -3'
miRNA:   3'- caUGCC-ACGGC-UGuCGGA-GCGGUCGa -5'
18583 3' -59.7 NC_004682.1 + 26633 0.68 0.338216
Target:  5'- -gACGGUGCCcgagaugcucugguaGucgguCAGCguCUCGCCAGCg -3'
miRNA:   3'- caUGCCACGG---------------Cu----GUCG--GAGCGGUCGa -5'
18583 3' -59.7 NC_004682.1 + 45759 0.68 0.327068
Target:  5'- gGUGCgGGUGCgGgaGCAGCCggugcggCGUCGGCg -3'
miRNA:   3'- -CAUG-CCACGgC--UGUCGGa------GCGGUCGa -5'
18583 3' -59.7 NC_004682.1 + 15724 0.69 0.296729
Target:  5'- aGUGCGuGgugGCCGGCGGUgUgCGCCGGUc -3'
miRNA:   3'- -CAUGC-Ca--CGGCUGUCGgA-GCGGUCGa -5'
18583 3' -59.7 NC_004682.1 + 24926 0.69 0.296729
Target:  5'- --uCGGUGCUGGCccccGCUUCGCaCAGCc -3'
miRNA:   3'- cauGCCACGGCUGu---CGGAGCG-GUCGa -5'
18583 3' -59.7 NC_004682.1 + 16953 0.69 0.289494
Target:  5'- -gGCGGcaGCCGA-AGCCUgaUGCCAGCg -3'
miRNA:   3'- caUGCCa-CGGCUgUCGGA--GCGGUCGa -5'
18583 3' -59.7 NC_004682.1 + 43898 0.69 0.289494
Target:  5'- -gACGGUGUgGACuGCCUCcCCuGCg -3'
miRNA:   3'- caUGCCACGgCUGuCGGAGcGGuCGa -5'
18583 3' -59.7 NC_004682.1 + 27729 0.69 0.282398
Target:  5'- -gACGGUGau-GCuGUCUCGCCAGCg -3'
miRNA:   3'- caUGCCACggcUGuCGGAGCGGUCGa -5'
18583 3' -59.7 NC_004682.1 + 41155 0.69 0.275441
Target:  5'- --cCGGUGUacgCGGCAGCCUUGCgaucCAGCg -3'
miRNA:   3'- cauGCCACG---GCUGUCGGAGCG----GUCGa -5'
18583 3' -59.7 NC_004682.1 + 4404 0.7 0.236556
Target:  5'- -cGCGGUGCCGACaAGCUgaccgacuacaUCcCCGGCa -3'
miRNA:   3'- caUGCCACGGCUG-UCGG-----------AGcGGUCGa -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.