miRNA display CGI


Results 1 - 20 of 467 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
28978 3' -64.4 NC_006146.1 + 3073 0.66 0.54566
Target:  5'- uGGCCCaGGCUaccgUCCAGaCCGCUCUgGAGCu -3'
miRNA:   3'- -UCGGG-CUGG----GGGUC-GGCGGGGgUUUG- -5'
28978 3' -64.4 NC_006146.1 + 3459 0.71 0.2882
Target:  5'- cGGCUCGugGCCUgC-GCCGUCCCCAGGCc -3'
miRNA:   3'- -UCGGGC--UGGGgGuCGGCGGGGGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 3825 0.66 0.526913
Target:  5'- aGGCCaggcggGGCaCCCCcGCUGCCCuaCCGGACc -3'
miRNA:   3'- -UCGGg-----CUG-GGGGuCGGCGGG--GGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 3940 0.68 0.428181
Target:  5'- gGGaCCC-ACCCCgGGCUgaagggccacgcgGCCCCCAGAg -3'
miRNA:   3'- -UC-GGGcUGGGGgUCGG-------------CGGGGGUUUg -5'
28978 3' -64.4 NC_006146.1 + 4168 0.68 0.412384
Target:  5'- cGGCUCGGCCUCC---UGCCCCgAGACg -3'
miRNA:   3'- -UCGGGCUGGGGGucgGCGGGGgUUUG- -5'
28978 3' -64.4 NC_006146.1 + 4368 0.7 0.307797
Target:  5'- uGGCCaCGGCCCCgCGGgC-UCCCCAGGCc -3'
miRNA:   3'- -UCGG-GCUGGGG-GUCgGcGGGGGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 4916 0.66 0.517629
Target:  5'- gAGCCgGACCCUCgcugucggguGGCCGUgcucugugCCCCGGGg -3'
miRNA:   3'- -UCGGgCUGGGGG----------UCGGCG--------GGGGUUUg -5'
28978 3' -64.4 NC_006146.1 + 5405 0.73 0.200017
Target:  5'- aGGaCCUGcACCCCUAGCU-CCCCCAGGCc -3'
miRNA:   3'- -UC-GGGC-UGGGGGUCGGcGGGGGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 7279 0.67 0.472278
Target:  5'- cGCuuGACCUCCAa-UGUCCCUAAGCa -3'
miRNA:   3'- uCGggCUGGGGGUcgGCGGGGGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 8495 0.68 0.4495
Target:  5'- uAGCCCGuGCCCaCCacuuguuacucccagGGCaaaGCCCCCGuccuGCa -3'
miRNA:   3'- -UCGGGC-UGGG-GG---------------UCGg--CGGGGGUu---UG- -5'
28978 3' -64.4 NC_006146.1 + 8866 0.7 0.335484
Target:  5'- cAGCCUG-CCCCC----GCCCCCAGGCu -3'
miRNA:   3'- -UCGGGCuGGGGGucggCGGGGGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 9141 0.72 0.263616
Target:  5'- cGCCCaggcGCCCCCucggaccucAGCCGCcacCCCCGGGCu -3'
miRNA:   3'- uCGGGc---UGGGGG---------UCGGCG---GGGGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 12329 0.68 0.446049
Target:  5'- aGGCCCG--CCUCAGUccccuCGCCCCUggGCc -3'
miRNA:   3'- -UCGGGCugGGGGUCG-----GCGGGGGuuUG- -5'
28978 3' -64.4 NC_006146.1 + 12479 0.71 0.275075
Target:  5'- gGGCCCcucugGACUccggcuuccccauCCCAGCCGCUCCCcGGCc -3'
miRNA:   3'- -UCGGG-----CUGG-------------GGGUCGGCGGGGGuUUG- -5'
28978 3' -64.4 NC_006146.1 + 12622 0.67 0.471391
Target:  5'- cAGCCCaGGCCaggccaccuuagaCCCGGCCaGgCCCCAuAACu -3'
miRNA:   3'- -UCGGG-CUGG-------------GGGUCGG-CgGGGGU-UUG- -5'
28978 3' -64.4 NC_006146.1 + 13056 0.76 0.132979
Target:  5'- uGCCCaGCCaCCCAGCCuCgCCCCAGGCg -3'
miRNA:   3'- uCGGGcUGG-GGGUCGGcG-GGGGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 13059 0.7 0.321418
Target:  5'- -uCCgGGCCCCaaggCGGCCGCCCUCAGu- -3'
miRNA:   3'- ucGGgCUGGGG----GUCGGCGGGGGUUug -5'
28978 3' -64.4 NC_006146.1 + 13181 0.73 0.204762
Target:  5'- uGCCCGGCCugCCCGGCCuCgCUCCGGGCg -3'
miRNA:   3'- uCGGGCUGG--GGGUCGGcG-GGGGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 13280 0.74 0.173519
Target:  5'- cGCCCcagaGCCCCUcgGGuCCGCCUCCAGGCg -3'
miRNA:   3'- uCGGGc---UGGGGG--UC-GGCGGGGGUUUG- -5'
28978 3' -64.4 NC_006146.1 + 13317 0.67 0.499263
Target:  5'- gAGCCUGcuGCCCCaggagaGGCCGgaCCCCGccuGGCg -3'
miRNA:   3'- -UCGGGC--UGGGGg-----UCGGCg-GGGGU---UUG- -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.