miRNA display CGI


Results 1 - 13 of 13 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
13234 3' -51.3 NC_003401.1 + 132233 0.66 0.980072
Target:  5'- cGCCGCCGccGGGccgCGGCCGccaUCuUGCg -3'
miRNA:   3'- -UGGUGGUuaCCCauaGUCGGU---AG-AUG- -5'
13234 3' -51.3 NC_003401.1 + 110918 0.66 0.975082
Target:  5'- aGCCACCAugaGGGU---AGCCGUCc-- -3'
miRNA:   3'- -UGGUGGUua-CCCAuagUCGGUAGaug -5'
13234 3' -51.3 NC_003401.1 + 68629 0.67 0.973422
Target:  5'- uGCCugCAGcgGGGUcguuauaccgccccaGUUGGCCAgaguUCUGCa -3'
miRNA:   3'- -UGGugGUUa-CCCA---------------UAGUCGGU----AGAUG- -5'
13234 3' -51.3 NC_003401.1 + 17006 0.67 0.972271
Target:  5'- cACCGCCAgGUGGGgcagGUUGGUgGUCUu- -3'
miRNA:   3'- -UGGUGGU-UACCCa---UAGUCGgUAGAug -5'
13234 3' -51.3 NC_003401.1 + 117872 0.67 0.965976
Target:  5'- aGCgGCCGAUGGGUAcgcgCGGCgacCAUCgaaACa -3'
miRNA:   3'- -UGgUGGUUACCCAUa---GUCG---GUAGa--UG- -5'
13234 3' -51.3 NC_003401.1 + 55188 0.67 0.965976
Target:  5'- -gCGCCGcgGGGg--CAGucCCAUCUGCc -3'
miRNA:   3'- ugGUGGUuaCCCauaGUC--GGUAGAUG- -5'
13234 3' -51.3 NC_003401.1 + 126719 0.68 0.950505
Target:  5'- gACCGCCucgcaGAUGGcGUAUCucgcGCCA-CUGCc -3'
miRNA:   3'- -UGGUGG-----UUACC-CAUAGu---CGGUaGAUG- -5'
13234 3' -51.3 NC_003401.1 + 80505 0.68 0.941244
Target:  5'- uACCGCC-GUGGGcgcagaugUGUgCAGCCGUC-ACa -3'
miRNA:   3'- -UGGUGGuUACCC--------AUA-GUCGGUAGaUG- -5'
13234 3' -51.3 NC_003401.1 + 74187 0.68 0.936219
Target:  5'- cACCGCCAAcugGGGcGUCGGUUGUCg-- -3'
miRNA:   3'- -UGGUGGUUa--CCCaUAGUCGGUAGaug -5'
13234 3' -51.3 NC_003401.1 + 85583 0.69 0.907107
Target:  5'- aGCCACCGGgcaGGGaAUCAgGCUAUCUuCa -3'
miRNA:   3'- -UGGUGGUUa--CCCaUAGU-CGGUAGAuG- -5'
13234 3' -51.3 NC_003401.1 + 33615 0.69 0.900491
Target:  5'- uGCCACC-AUGGGUAUCAuaC-UCUGu -3'
miRNA:   3'- -UGGUGGuUACCCAUAGUcgGuAGAUg -5'
13234 3' -51.3 NC_003401.1 + 97051 0.73 0.722587
Target:  5'- gACCACCAcugGGGUGgaGGCCAUCa-- -3'
miRNA:   3'- -UGGUGGUua-CCCAUagUCGGUAGaug -5'
13234 3' -51.3 NC_003401.1 + 97544 1.09 0.006089
Target:  5'- cACCACCAAUGGGUAUCAGCCAUCUACc -3'
miRNA:   3'- -UGGUGGUUACCCAUAGUCGGUAGAUG- -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.