miRNA display CGI


Results 1 - 20 of 31 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
25989 3' -62.1 NC_005340.1 + 16874 1.09 0.000112
Target:  5'- uGCGCCACCGCCGCCAGACUGACGCCGc -3'
miRNA:   3'- -CGCGGUGGCGGCGGUCUGACUGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 28315 0.74 0.06992
Target:  5'- uUGCCGCCGUCcaugauGCC--GCUGACGCCGg -3'
miRNA:   3'- cGCGGUGGCGG------CGGucUGACUGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 16295 0.72 0.098318
Target:  5'- gGCGCaguaCGCCGCC-CCGGgcGCUGAUGCUGu -3'
miRNA:   3'- -CGCG----GUGGCGGcGGUC--UGACUGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 19308 0.71 0.104006
Target:  5'- uCGaCCagACCGCCGCCAGAaccaACGCCGc -3'
miRNA:   3'- cGC-GG--UGGCGGCGGUCUgac-UGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 9133 0.71 0.106965
Target:  5'- -aGCCACCGCUGCCuGAgccagUGACGCg- -3'
miRNA:   3'- cgCGGUGGCGGCGGuCUg----ACUGCGgc -5'
25989 3' -62.1 NC_005340.1 + 9302 0.71 0.116324
Target:  5'- cGCGCCGCCGgUGaCAGGCUGGCaaucagaCCGg -3'
miRNA:   3'- -CGCGGUGGCgGCgGUCUGACUGc------GGC- -5'
25989 3' -62.1 NC_005340.1 + 19454 0.71 0.119609
Target:  5'- aGCGCC-CCGCCGgugcgguaaCGGGCUGAUaaGCCu -3'
miRNA:   3'- -CGCGGuGGCGGCg--------GUCUGACUG--CGGc -5'
25989 3' -62.1 NC_005340.1 + 14065 0.7 0.133632
Target:  5'- aCGCCACaGaCCGCCAGAaa-GCGCCa -3'
miRNA:   3'- cGCGGUGgC-GGCGGUCUgacUGCGGc -5'
25989 3' -62.1 NC_005340.1 + 3474 0.7 0.137368
Target:  5'- cGCGUCaACCGCUacaGCCAGACcggcaacGAgGCCGa -3'
miRNA:   3'- -CGCGG-UGGCGG---CGGUCUGa------CUgCGGC- -5'
25989 3' -62.1 NC_005340.1 + 2219 0.69 0.145128
Target:  5'- uCGCCGCgGCUGUCuGGAauacGACGCCGg -3'
miRNA:   3'- cGCGGUGgCGGCGG-UCUga--CUGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 8199 0.69 0.148749
Target:  5'- cGCGCUggccguaACCGgCGCCcGGCaaUGACGCCc -3'
miRNA:   3'- -CGCGG-------UGGCgGCGGuCUG--ACUGCGGc -5'
25989 3' -62.1 NC_005340.1 + 11660 0.69 0.153286
Target:  5'- uUGCCGCCGCaagggcaugUGCCgAGAUUGAaagaaCGCCGg -3'
miRNA:   3'- cGCGGUGGCG---------GCGG-UCUGACU-----GCGGC- -5'
25989 3' -62.1 NC_005340.1 + 8570 0.69 0.157519
Target:  5'- uGCGCCAgCGCCGgu-GAUUGugGUCa -3'
miRNA:   3'- -CGCGGUgGCGGCgguCUGACugCGGc -5'
25989 3' -62.1 NC_005340.1 + 9377 0.69 0.162297
Target:  5'- gGUGCCuGCUGUCGCCugaugcgcugcugcuGACUGGCGCg- -3'
miRNA:   3'- -CGCGG-UGGCGGCGGu--------------CUGACUGCGgc -5'
25989 3' -62.1 NC_005340.1 + 16613 0.68 0.180304
Target:  5'- uGCGCgGCggUGCUGuuCCAGACggucGACGCCGu -3'
miRNA:   3'- -CGCGgUG--GCGGC--GGUCUGa---CUGCGGC- -5'
25989 3' -62.1 NC_005340.1 + 17456 0.67 0.200591
Target:  5'- aGCGCCugCGCCugcgcgcggGUCGGACUgGugGUg- -3'
miRNA:   3'- -CGCGGugGCGG---------CGGUCUGA-CugCGgc -5'
25989 3' -62.1 NC_005340.1 + 6960 0.67 0.205964
Target:  5'- aCGaCUACCGgcugCGCCAGACUGcCGCgGg -3'
miRNA:   3'- cGC-GGUGGCg---GCGGUCUGACuGCGgC- -5'
25989 3' -62.1 NC_005340.1 + 22239 0.67 0.205964
Target:  5'- -aGCUACCGgCGCCAGAUggagUGAgGCa- -3'
miRNA:   3'- cgCGGUGGCgGCGGUCUG----ACUgCGgc -5'
25989 3' -62.1 NC_005340.1 + 17861 0.67 0.209799
Target:  5'- cGCGCCagcucggugacaauACCGCCGCUucuGCUGAUgaugcaGCCa -3'
miRNA:   3'- -CGCGG--------------UGGCGGCGGuc-UGACUG------CGGc -5'
25989 3' -62.1 NC_005340.1 + 27844 0.67 0.211461
Target:  5'- uGCGUguCCGa---CGGGCUGGCGCCGu -3'
miRNA:   3'- -CGCGguGGCggcgGUCUGACUGCGGC- -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.