miRNA display CGI


Results 1 - 20 of 32 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
22285 3' -64.8 NC_005045.1 + 31599 0.66 0.218691
Target:  5'- aGGCCCaaguacAGGGCcaacuCGaCGCGGUGCCUa- -3'
miRNA:   3'- -UCGGG------UCCCGu----GCcGCGUCGCGGAgu -5'
22285 3' -64.8 NC_005045.1 + 9049 0.66 0.218691
Target:  5'- uGGCCgAGGuccGCgagAUGGCGguGCGCCa-- -3'
miRNA:   3'- -UCGGgUCC---CG---UGCCGCguCGCGGagu -5'
22285 3' -64.8 NC_005045.1 + 17896 0.66 0.218131
Target:  5'- cAGCCuccucgguCAGGGCcaccuCGGCgGCGGCcauugcauugaacGCCUCAu -3'
miRNA:   3'- -UCGG--------GUCCCGu----GCCG-CGUCG-------------CGGAGU- -5'
22285 3' -64.8 NC_005045.1 + 18779 0.66 0.213149
Target:  5'- -uUCCAGGGuCGCGGCG--GCGCCa-- -3'
miRNA:   3'- ucGGGUCCC-GUGCCGCguCGCGGagu -5'
22285 3' -64.8 NC_005045.1 + 16750 0.66 0.213149
Target:  5'- cGCCUaucgAGGGCugGGUGUGGuCGCuCUgGa -3'
miRNA:   3'- uCGGG----UCCCGugCCGCGUC-GCG-GAgU- -5'
22285 3' -64.8 NC_005045.1 + 40175 0.66 0.202428
Target:  5'- aGGCCCucaAGGGCAucgaucCGGUcguccuucgGCAGUgaGCCUCGg -3'
miRNA:   3'- -UCGGG---UCCCGU------GCCG---------CGUCG--CGGAGU- -5'
22285 3' -64.8 NC_005045.1 + 36961 0.66 0.202428
Target:  5'- gGGaCCGGGGUACGGuUGCcGGUGCCg-- -3'
miRNA:   3'- -UCgGGUCCCGUGCC-GCG-UCGCGGagu -5'
22285 3' -64.8 NC_005045.1 + 18051 0.66 0.202428
Target:  5'- aGGCCCuugucGGgGCGGCGCAGaacgaCGCCcgCAu -3'
miRNA:   3'- -UCGGGuc---CCgUGCCGCGUC-----GCGGa-GU- -5'
22285 3' -64.8 NC_005045.1 + 27382 0.66 0.197245
Target:  5'- -aCCCAGGGCACGcucCGCAGCGa---- -3'
miRNA:   3'- ucGGGUCCCGUGCc--GCGUCGCggagu -5'
22285 3' -64.8 NC_005045.1 + 24007 0.67 0.182385
Target:  5'- -aCCCAGGGguUGGC-CGGCuGCCUg- -3'
miRNA:   3'- ucGGGUCCCguGCCGcGUCG-CGGAgu -5'
22285 3' -64.8 NC_005045.1 + 34649 0.67 0.182385
Target:  5'- aGGUCCGGGuuGCGGCGCAugGCCcCAa -3'
miRNA:   3'- -UCGGGUCCcgUGCCGCGUcgCGGaGU- -5'
22285 3' -64.8 NC_005045.1 + 17981 0.67 0.182385
Target:  5'- -uUCCAGGGUgGCGGCGCGguauucGCGCCa-- -3'
miRNA:   3'- ucGGGUCCCG-UGCCGCGU------CGCGGagu -5'
22285 3' -64.8 NC_005045.1 + 33442 0.67 0.177657
Target:  5'- cGGCCCAGGa---GGCGCcguGCGcCCUCu -3'
miRNA:   3'- -UCGGGUCCcgugCCGCGu--CGC-GGAGu -5'
22285 3' -64.8 NC_005045.1 + 10575 0.67 0.170317
Target:  5'- aAGCCCAuGGCGCGGUgguagccguaccagcGUAGUaccGCCUCc -3'
miRNA:   3'- -UCGGGUcCCGUGCCG---------------CGUCG---CGGAGu -5'
22285 3' -64.8 NC_005045.1 + 8547 0.67 0.159816
Target:  5'- -cCCCu---CACGGCGCAGgGCCUCGu -3'
miRNA:   3'- ucGGGucccGUGCCGCGUCgCGGAGU- -5'
22285 3' -64.8 NC_005045.1 + 4744 0.68 0.143608
Target:  5'- cGCCCGGGGUagcaGCGGUGguG-GUUUCGg -3'
miRNA:   3'- uCGGGUCCCG----UGCCGCguCgCGGAGU- -5'
22285 3' -64.8 NC_005045.1 + 13629 0.68 0.132453
Target:  5'- uAGCCCAGGcGCucgcucauguaGCGG-GCAGCGUCg-- -3'
miRNA:   3'- -UCGGGUCC-CG-----------UGCCgCGUCGCGGagu -5'
22285 3' -64.8 NC_005045.1 + 41518 0.69 0.128916
Target:  5'- uGCCCuGGGCgGCGaGgGCGGCGCUa-- -3'
miRNA:   3'- uCGGGuCCCG-UGC-CgCGUCGCGGagu -5'
22285 3' -64.8 NC_005045.1 + 18896 0.69 0.122102
Target:  5'- uGGCCCAGGugGCGGaGCuGCGCCUg- -3'
miRNA:   3'- -UCGGGUCCcgUGCCgCGuCGCGGAgu -5'
22285 3' -64.8 NC_005045.1 + 41215 0.69 0.12177
Target:  5'- uGGUCCAGGGCACGGUcCaccuccuGGCGCUg-- -3'
miRNA:   3'- -UCGGGUCCCGUGCCGcG-------UCGCGGagu -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.