miRNA display CGI


Results 1 - 20 of 54 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
25660 3' -51.6 NC_005337.1 + 117032 0.66 0.983546
Target:  5'- gGGCGCU--GCCGAcGCUG--CAGGUGg -3'
miRNA:   3'- -CCGUGAagCGGUU-CGACaaGUCCAUg -5'
25660 3' -51.6 NC_005337.1 + 88037 0.66 0.983546
Target:  5'- aGGuCACgcUCGCCAcGCUGaUCGcGUACg -3'
miRNA:   3'- -CC-GUGa-AGCGGUuCGACaAGUcCAUG- -5'
25660 3' -51.6 NC_005337.1 + 65752 0.66 0.983546
Target:  5'- cGGCACgcucagaGCCGAGCg---CGGGcGCa -3'
miRNA:   3'- -CCGUGaag----CGGUUCGacaaGUCCaUG- -5'
25660 3' -51.6 NC_005337.1 + 80436 0.66 0.98016
Target:  5'- cGGCGCgcagCGCCAGccgguccgaggagacGCUGUugaaguacuUCGGGaGCa -3'
miRNA:   3'- -CCGUGaa--GCGGUU---------------CGACA---------AGUCCaUG- -5'
25660 3' -51.6 NC_005337.1 + 83694 0.66 0.979237
Target:  5'- cGGCGCgUCGCgaCAGGCc-UUCAGGcGCg -3'
miRNA:   3'- -CCGUGaAGCG--GUUCGacAAGUCCaUG- -5'
25660 3' -51.6 NC_005337.1 + 20781 0.66 0.977795
Target:  5'- cGCGCUUCGCgGggacgggcgugccggAGCUGgaCAGGa-- -3'
miRNA:   3'- cCGUGAAGCGgU---------------UCGACaaGUCCaug -5'
25660 3' -51.6 NC_005337.1 + 79586 0.66 0.976792
Target:  5'- uGUugU-CGCCGAGCU--UCAGcGUGCu -3'
miRNA:   3'- cCGugAaGCGGUUCGAcaAGUC-CAUG- -5'
25660 3' -51.6 NC_005337.1 + 65289 0.66 0.976792
Target:  5'- cGGCGC-UCGCCAAGgaGga-GGGcaagcUGCg -3'
miRNA:   3'- -CCGUGaAGCGGUUCgaCaagUCC-----AUG- -5'
25660 3' -51.6 NC_005337.1 + 8371 0.66 0.976792
Target:  5'- cGGCACgagcucccaaUgGCCAGGCUGUgCAGcaccguguuGUGCa -3'
miRNA:   3'- -CCGUGa---------AgCGGUUCGACAaGUC---------CAUG- -5'
25660 3' -51.6 NC_005337.1 + 38233 0.66 0.976792
Target:  5'- uGUuCUUCGCCGAGUaGggCGGGcGCg -3'
miRNA:   3'- cCGuGAAGCGGUUCGaCaaGUCCaUG- -5'
25660 3' -51.6 NC_005337.1 + 84997 0.66 0.974143
Target:  5'- gGGCGCgUUCGCCGAuGCcGUUCAcGcGCu -3'
miRNA:   3'- -CCGUG-AAGCGGUU-CGaCAAGUcCaUG- -5'
25660 3' -51.6 NC_005337.1 + 69735 0.66 0.974143
Target:  5'- cGGCACggUGCCGGGCgagcUUAagcGGUGCa -3'
miRNA:   3'- -CCGUGaaGCGGUUCGaca-AGU---CCAUG- -5'
25660 3' -51.6 NC_005337.1 + 128155 0.67 0.971279
Target:  5'- aGCAUgUCGCCGGGCUGcUguGuccGUGCg -3'
miRNA:   3'- cCGUGaAGCGGUUCGACaAguC---CAUG- -5'
25660 3' -51.6 NC_005337.1 + 51762 0.67 0.971279
Target:  5'- uGGCGCUggacggcCGCCccguGGC-GUUCcccGGGUGCg -3'
miRNA:   3'- -CCGUGAa------GCGGu---UCGaCAAG---UCCAUG- -5'
25660 3' -51.6 NC_005337.1 + 108478 0.67 0.971279
Target:  5'- uGCugUUCG-CAGGCUcucCAGGUGCc -3'
miRNA:   3'- cCGugAAGCgGUUCGAcaaGUCCAUG- -5'
25660 3' -51.6 NC_005337.1 + 93779 0.67 0.968196
Target:  5'- cGCACcaCGUgAucGCUGUUgAGGUGCg -3'
miRNA:   3'- cCGUGaaGCGgUu-CGACAAgUCCAUG- -5'
25660 3' -51.6 NC_005337.1 + 109721 0.67 0.964883
Target:  5'- uGGCGCcggaaCGCCGAGCag-UCGgcGGUGCg -3'
miRNA:   3'- -CCGUGaa---GCGGUUCGacaAGU--CCAUG- -5'
25660 3' -51.6 NC_005337.1 + 79261 0.67 0.964883
Target:  5'- aGCACgaagUCGCCcucagacuGCUGguacccCGGGUACg -3'
miRNA:   3'- cCGUGa---AGCGGuu------CGACaa----GUCCAUG- -5'
25660 3' -51.6 NC_005337.1 + 69175 0.67 0.961337
Target:  5'- aGCACaUCGCCAAGCacgUgAGcGUGCu -3'
miRNA:   3'- cCGUGaAGCGGUUCGacaAgUC-CAUG- -5'
25660 3' -51.6 NC_005337.1 + 84107 0.67 0.961337
Target:  5'- gGGCGCggUCGCCGucuguuucgAGUcGUUCGGGa-- -3'
miRNA:   3'- -CCGUGa-AGCGGU---------UCGaCAAGUCCaug -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.