miRNA display CGI


Results 1 - 15 of 15 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
1079 5' -52.8 NC_000929.1 + 25145 0.66 0.685709
Target:  5'- aGCGCauCUUUACCcgGUUucaGCCAgcGCCAUa -3'
miRNA:   3'- gCGCG--GAAAUGG--CAA---CGGUuuCGGUG- -5'
1079 5' -52.8 NC_000929.1 + 29875 0.66 0.719948
Target:  5'- aGCGCCU--GCCGgguagcugGCCucAGGCC-Cg -3'
miRNA:   3'- gCGCGGAaaUGGCaa------CGGu-UUCGGuG- -5'
1079 5' -52.8 NC_000929.1 + 11273 0.67 0.627661
Target:  5'- uGUGCCU--GCCGUUGCUGcugacAGGUUGCg -3'
miRNA:   3'- gCGCGGAaaUGGCAACGGU-----UUCGGUG- -5'
1079 5' -52.8 NC_000929.1 + 27457 0.67 0.635816
Target:  5'- uGCGUCUgcugGuuGUUGCCGAccuggaaaaacgcgGGCUGCa -3'
miRNA:   3'- gCGCGGAaa--UggCAACGGUU--------------UCGGUG- -5'
1079 5' -52.8 NC_000929.1 + 10261 0.67 0.63931
Target:  5'- gCGuCGCCagUACCGccUGUCccAGCCGCa -3'
miRNA:   3'- -GC-GCGGaaAUGGCa-ACGGuuUCGGUG- -5'
1079 5' -52.8 NC_000929.1 + 16876 0.67 0.662573
Target:  5'- aGUGCCUgauCCGUa-CCAAAuGCCGCc -3'
miRNA:   3'- gCGCGGAaauGGCAacGGUUU-CGGUG- -5'
1079 5' -52.8 NC_000929.1 + 27638 0.68 0.592787
Target:  5'- gCGgGCCa--GCCGUUGCCAGuuccGGCUg- -3'
miRNA:   3'- -GCgCGGaaaUGGCAACGGUU----UCGGug -5'
1079 5' -52.8 NC_000929.1 + 2457 0.68 0.558246
Target:  5'- aGCGUUgUUGCCGguaaagGCUggGGCCAg -3'
miRNA:   3'- gCGCGGaAAUGGCaa----CGGuuUCGGUg -5'
1079 5' -52.8 NC_000929.1 + 22124 0.68 0.558246
Target:  5'- aGCGCCgcucCCGUUGCaccuGCUGCg -3'
miRNA:   3'- gCGCGGaaauGGCAACGguuuCGGUG- -5'
1079 5' -52.8 NC_000929.1 + 26299 0.69 0.502106
Target:  5'- aCGUGCCUUUGCCGguuguuuuccUGCCu---CCACc -3'
miRNA:   3'- -GCGCGGAAAUGGCa---------ACGGuuucGGUG- -5'
1079 5' -52.8 NC_000929.1 + 25458 0.69 0.546852
Target:  5'- cCGCcaGCCguuaUUGCUGUccggGCCAcAGCCGCu -3'
miRNA:   3'- -GCG--CGGa---AAUGGCAa---CGGUuUCGGUG- -5'
1079 5' -52.8 NC_000929.1 + 4250 0.7 0.480336
Target:  5'- aCGCucaCCUUUACCGUgaGCCGucauGGCUGCa -3'
miRNA:   3'- -GCGc--GGAAAUGGCAa-CGGUu---UCGGUG- -5'
1079 5' -52.8 NC_000929.1 + 22574 0.71 0.398356
Target:  5'- aCGcCGCCacacugugUGCCGUUGCC--AGCCAg -3'
miRNA:   3'- -GC-GCGGaa------AUGGCAACGGuuUCGGUg -5'
1079 5' -52.8 NC_000929.1 + 4400 0.73 0.304565
Target:  5'- gCGCGCCUgUAaccaguucugcgcauCCGUUGCCAuuuuuauauuucGGGCCAUc -3'
miRNA:   3'- -GCGCGGAaAU---------------GGCAACGGU------------UUCGGUG- -5'
1079 5' -52.8 NC_000929.1 + 16185 1.09 0.000874
Target:  5'- cCGCGCCUUUACCGUUGCCAAAGCCACc -3'
miRNA:   3'- -GCGCGGAAAUGGCAACGGUUUCGGUG- -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.