miRNA display CGI


Results 1 - 20 of 97 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
28179 5' -57.7 NC_005887.1 + 40622 1.09 0.000325
Target:  5'- gUGGCCGCACAUCGGCAAGACAGGCACu -3'
miRNA:   3'- -ACCGGCGUGUAGCCGUUCUGUCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 16906 0.78 0.070839
Target:  5'- aGGCUgcagccgaGCAgAUCGGCAAGACgacGGGCGCg -3'
miRNA:   3'- aCCGG--------CGUgUAGCCGUUCUG---UCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 5514 0.77 0.089478
Target:  5'- cGGCCGCAgCAcCGGCcgcaGCAGGCACg -3'
miRNA:   3'- aCCGGCGU-GUaGCCGuuc-UGUCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 14917 0.76 0.100465
Target:  5'- gGGCCgGCAUGggccUCGGCAAGACGGucaGCACg -3'
miRNA:   3'- aCCGG-CGUGU----AGCCGUUCUGUC---CGUG- -5'
28179 5' -57.7 NC_005887.1 + 9777 0.75 0.11599
Target:  5'- -aGCCuGCugAUCGGCAuGACGGGCGa -3'
miRNA:   3'- acCGG-CGugUAGCCGUuCUGUCCGUg -5'
28179 5' -57.7 NC_005887.1 + 29432 0.74 0.149687
Target:  5'- cGGCCGaguaguCGUCGGCGu--CAGGCGCu -3'
miRNA:   3'- aCCGGCgu----GUAGCCGUucuGUCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 18855 0.74 0.149687
Target:  5'- cGGCCGaaCACGUCGGCAagcAGAUcaaGGGCGu -3'
miRNA:   3'- aCCGGC--GUGUAGCCGU---UCUG---UCCGUg -5'
28179 5' -57.7 NC_005887.1 + 3302 0.73 0.166894
Target:  5'- cGGCgaCGCagcucugGCAUCGGCugAAGACGGGCAa -3'
miRNA:   3'- aCCG--GCG-------UGUAGCCG--UUCUGUCCGUg -5'
28179 5' -57.7 NC_005887.1 + 24544 0.73 0.167358
Target:  5'- cGGCCGCACcuUCGGC----CGGGCGCc -3'
miRNA:   3'- aCCGGCGUGu-AGCCGuucuGUCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 13894 0.73 0.172059
Target:  5'- cGGCUcguGCGCGUCGGCAuu-CGuGGCACg -3'
miRNA:   3'- aCCGG---CGUGUAGCCGUucuGU-CCGUG- -5'
28179 5' -57.7 NC_005887.1 + 26670 0.73 0.176878
Target:  5'- cGGCCGCGCggCGGUGAGcuggucgaGCucGGCGCg -3'
miRNA:   3'- aCCGGCGUGuaGCCGUUC--------UGu-CCGUG- -5'
28179 5' -57.7 NC_005887.1 + 18147 0.71 0.219901
Target:  5'- uUGGCaacaCGCACGUCGGCAAcacGACgcuguGGGCGg -3'
miRNA:   3'- -ACCG----GCGUGUAGCCGUU---CUG-----UCCGUg -5'
28179 5' -57.7 NC_005887.1 + 14714 0.71 0.231969
Target:  5'- gGGCCGgGCG-CGGCGAucgcGCAGGCGa -3'
miRNA:   3'- aCCGGCgUGUaGCCGUUc---UGUCCGUg -5'
28179 5' -57.7 NC_005887.1 + 33649 0.71 0.243947
Target:  5'- cGcGCUGCGC-UCGGCGAGGguuucauugaucuCGGGCAUa -3'
miRNA:   3'- aC-CGGCGUGuAGCCGUUCU-------------GUCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 38116 0.71 0.244591
Target:  5'- cGGCCGaGCGUCGGCGcGAgCAG-CACg -3'
miRNA:   3'- aCCGGCgUGUAGCCGUuCU-GUCcGUG- -5'
28179 5' -57.7 NC_005887.1 + 12110 0.7 0.251113
Target:  5'- cUGGCCGCGCAgaagCGcCAGGACGaGCAg -3'
miRNA:   3'- -ACCGGCGUGUa---GCcGUUCUGUcCGUg -5'
28179 5' -57.7 NC_005887.1 + 13939 0.7 0.251113
Target:  5'- gGGUCGaaguuCGUcaCGGaCAAGACGGGCGCg -3'
miRNA:   3'- aCCGGCgu---GUA--GCC-GUUCUGUCCGUG- -5'
28179 5' -57.7 NC_005887.1 + 14982 0.7 0.271541
Target:  5'- -cGCCGCGCAggcCGcGCAGGccGCAGGCGu -3'
miRNA:   3'- acCGGCGUGUa--GC-CGUUC--UGUCCGUg -5'
28179 5' -57.7 NC_005887.1 + 28332 0.7 0.277924
Target:  5'- cGGCgGCGCGcCGGCGguugcggAGGCGcgcGGCGCa -3'
miRNA:   3'- aCCGgCGUGUaGCCGU-------UCUGU---CCGUG- -5'
28179 5' -57.7 NC_005887.1 + 22657 0.7 0.278641
Target:  5'- gUGGCgCGCauugauauuGCAUCGGCcGG-UGGGCGCa -3'
miRNA:   3'- -ACCG-GCG---------UGUAGCCGuUCuGUCCGUG- -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.