miRNA display CGI


Results 1 - 20 of 34 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
28167 3' -52.9 NC_005887.1 + 16944 0.66 0.725646
Target:  5'- aUGCGUgaGCGCuucaACCGCGcgGCgGCAa -3'
miRNA:   3'- cACGCAa-CGCG----UGGCGUuuUGaCGUa -5'
28167 3' -52.9 NC_005887.1 + 41609 0.66 0.725646
Target:  5'- gGUGCGgcggccgGCGCGgcCCGUGAGgaucuGCUGCGUc -3'
miRNA:   3'- -CACGCaa-----CGCGU--GGCGUUU-----UGACGUA- -5'
28167 3' -52.9 NC_005887.1 + 32309 0.66 0.725646
Target:  5'- -aGCcg-GCGCGCCGCAG---UGCGUa -3'
miRNA:   3'- caCGcaaCGCGUGGCGUUuugACGUA- -5'
28167 3' -52.9 NC_005887.1 + 9056 0.66 0.71432
Target:  5'- -cGCGcUUGUGCGCaGCAGcuuCUGCGUa -3'
miRNA:   3'- caCGC-AACGCGUGgCGUUuu-GACGUA- -5'
28167 3' -52.9 NC_005887.1 + 15950 0.66 0.702902
Target:  5'- -cGCGUcgaGCGCACCGa---GCUGCu- -3'
miRNA:   3'- caCGCAa--CGCGUGGCguuuUGACGua -5'
28167 3' -52.9 NC_005887.1 + 12993 0.66 0.702902
Target:  5'- cUGCGgcaggGaCGCGCuCGCGAAACcgGCGUg -3'
miRNA:   3'- cACGCaa---C-GCGUG-GCGUUUUGa-CGUA- -5'
28167 3' -52.9 NC_005887.1 + 3774 0.66 0.702902
Target:  5'- -cGCGgucgGCGCGCgGCucGACgGCGUg -3'
miRNA:   3'- caCGCaa--CGCGUGgCGuuUUGaCGUA- -5'
28167 3' -52.9 NC_005887.1 + 14989 0.66 0.702902
Target:  5'- -cGCGgcgUGCGUcgAUCGCGAguGAUUGCAg -3'
miRNA:   3'- caCGCa--ACGCG--UGGCGUU--UUGACGUa -5'
28167 3' -52.9 NC_005887.1 + 28313 0.66 0.679846
Target:  5'- aGUG-GUgaaGCGcCGCuCGCGAAGCUGCGc -3'
miRNA:   3'- -CACgCAa--CGC-GUG-GCGUUUUGACGUa -5'
28167 3' -52.9 NC_005887.1 + 30531 0.66 0.679846
Target:  5'- -cGCGUcGCGCACCGCcuguuccAGCccgGCAa -3'
miRNA:   3'- caCGCAaCGCGUGGCGuu-----UUGa--CGUa -5'
28167 3' -52.9 NC_005887.1 + 40745 0.66 0.679846
Target:  5'- cGUGCGc-GCGCGCCagguGCAGGAUggUGCGg -3'
miRNA:   3'- -CACGCaaCGCGUGG----CGUUUUG--ACGUa -5'
28167 3' -52.9 NC_005887.1 + 10632 0.67 0.621533
Target:  5'- uUGCGcugucccguUUGCgGCGCCgGCGuuGAGCUGCAUa -3'
miRNA:   3'- cACGC---------AACG-CGUGG-CGU--UUUGACGUA- -5'
28167 3' -52.9 NC_005887.1 + 24009 0.67 0.621533
Target:  5'- gGUGCG-UGCGCagacgGCCGCGAGGCcGaCGUc -3'
miRNA:   3'- -CACGCaACGCG-----UGGCGUUUUGaC-GUA- -5'
28167 3' -52.9 NC_005887.1 + 17399 0.67 0.621533
Target:  5'- uGUGCGcgucaGCAUCGCGGAAgUGCAg -3'
miRNA:   3'- -CACGCaacg-CGUGGCGUUUUgACGUa -5'
28167 3' -52.9 NC_005887.1 + 9916 0.67 0.620364
Target:  5'- uGUGCGgcGCGCggcguucagguugGCCGCGcugaccGGCUGCGa -3'
miRNA:   3'- -CACGCaaCGCG-------------UGGCGUu-----UUGACGUa -5'
28167 3' -52.9 NC_005887.1 + 4547 0.68 0.609854
Target:  5'- -gGCGaUGaGCACCGacgaGGAACUGCAg -3'
miRNA:   3'- caCGCaACgCGUGGCg---UUUUGACGUa -5'
28167 3' -52.9 NC_005887.1 + 35457 0.68 0.609854
Target:  5'- cGUGCGcggGCGCAUCGagcauGAGCUGUg- -3'
miRNA:   3'- -CACGCaa-CGCGUGGCgu---UUUGACGua -5'
28167 3' -52.9 NC_005887.1 + 32964 0.68 0.598197
Target:  5'- --aCGUUcucGCGCGgCGCGAAACUGCu- -3'
miRNA:   3'- cacGCAA---CGCGUgGCGUUUUGACGua -5'
28167 3' -52.9 NC_005887.1 + 4884 0.68 0.586573
Target:  5'- cUG-GUUG-GCGCgGCAGAACUGCGc -3'
miRNA:   3'- cACgCAACgCGUGgCGUUUUGACGUa -5'
28167 3' -52.9 NC_005887.1 + 32852 0.68 0.551997
Target:  5'- -aGCGgcGCGCGCCGauccugcgcaCGAGccgGCUGCAUg -3'
miRNA:   3'- caCGCaaCGCGUGGC----------GUUU---UGACGUA- -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.