miRNA display CGI


Results 1 - 20 of 53 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
30212 3' -59.2 NC_006273.1 + 1086 0.68 0.765486
Target:  5'- cGCCGGGCGCCccUCCGAGUagcggcaaCAacagcaacuuuUGgcacggCCCg -3'
miRNA:   3'- -UGGCCCGCGG--AGGCUCAg-------GU-----------AUa-----GGG- -5'
30212 3' -59.2 NC_006273.1 + 2288 0.67 0.840748
Target:  5'- aGCUGGGCGCCgugUUCGGGUaCUg---CCCg -3'
miRNA:   3'- -UGGCCCGCGG---AGGCUCA-GGuauaGGG- -5'
30212 3' -59.2 NC_006273.1 + 13586 0.66 0.876966
Target:  5'- cGCCGGGCGgC-CCGGGccgCCGUGcuggagggccgCCCc -3'
miRNA:   3'- -UGGCCCGCgGaGGCUCa--GGUAUa----------GGG- -5'
30212 3' -59.2 NC_006273.1 + 31795 0.66 0.870094
Target:  5'- cCCGGaGUGCCUcguggagaccaCCGAagCCGUAUUCCg -3'
miRNA:   3'- uGGCC-CGCGGA-----------GGCUcaGGUAUAGGG- -5'
30212 3' -59.2 NC_006273.1 + 35985 0.69 0.728966
Target:  5'- uUCGGGCGCUUgUGGGUCCAggcAUCa- -3'
miRNA:   3'- uGGCCCGCGGAgGCUCAGGUa--UAGgg -5'
30212 3' -59.2 NC_006273.1 + 38483 0.67 0.832974
Target:  5'- cGCCGGcG-GCCUCCGucUCCGUG-CCg -3'
miRNA:   3'- -UGGCC-CgCGGAGGCucAGGUAUaGGg -5'
30212 3' -59.2 NC_006273.1 + 38770 0.67 0.840748
Target:  5'- cGCCGGcGCaGCUcccgUCCGAGcgCCGUcgCCUc -3'
miRNA:   3'- -UGGCC-CG-CGG----AGGCUCa-GGUAuaGGG- -5'
30212 3' -59.2 NC_006273.1 + 39700 0.66 0.870094
Target:  5'- cACgCGGaCGgCUCCGucGUCCGUGUgCCa -3'
miRNA:   3'- -UG-GCCcGCgGAGGCu-CAGGUAUAgGG- -5'
30212 3' -59.2 NC_006273.1 + 49972 0.66 0.883644
Target:  5'- aGCCGGGUGCCgcauuccugcUCCagaaagucguuGAGaCCGUugaaGUCCCc -3'
miRNA:   3'- -UGGCCCGCGG----------AGG-----------CUCaGGUA----UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 57696 0.66 0.892026
Target:  5'- aGCCGcagcgccagcgucGGCGgCUCCGAGaggcgcgucuugcgaUCCA--UCCCg -3'
miRNA:   3'- -UGGC-------------CCGCgGAGGCUC---------------AGGUauAGGG- -5'
30212 3' -59.2 NC_006273.1 + 65189 0.67 0.855781
Target:  5'- cAUCGGGuCGUCUcacCCGAGUCCugGUCUUu -3'
miRNA:   3'- -UGGCCC-GCGGA---GGCUCAGGuaUAGGG- -5'
30212 3' -59.2 NC_006273.1 + 71509 0.69 0.747406
Target:  5'- cACCGGGUgggugGCCUCUGAGaUCUcgGUCg- -3'
miRNA:   3'- -UGGCCCG-----CGGAGGCUC-AGGuaUAGgg -5'
30212 3' -59.2 NC_006273.1 + 78529 0.68 0.765486
Target:  5'- cACCGGGCGCCgucaggaCGuaaaAGaCCcgAUCCCc -3'
miRNA:   3'- -UGGCCCGCGGag-----GC----UCaGGuaUAGGG- -5'
30212 3' -59.2 NC_006273.1 + 86737 0.67 0.832974
Target:  5'- uCCaGGCcgGCCUCCGGcgCCAggAUCCCg -3'
miRNA:   3'- uGGcCCG--CGGAGGCUcaGGUa-UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 94322 0.67 0.816943
Target:  5'- gGCCGaGGC-CCggcgCCG-GUCCGUccgcgggcccGUCCCa -3'
miRNA:   3'- -UGGC-CCGcGGa---GGCuCAGGUA----------UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 94397 0.71 0.59489
Target:  5'- cACCGGGCGCggcccgCUCCGGaccucggCCGgggGUCCCu -3'
miRNA:   3'- -UGGCCCGCG------GAGGCUca-----GGUa--UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 101184 0.67 0.825037
Target:  5'- gGCCGuaGGCGCCUaCCGAcaCCAguuUCUCa -3'
miRNA:   3'- -UGGC--CCGCGGA-GGCUcaGGUau-AGGG- -5'
30212 3' -59.2 NC_006273.1 + 102896 0.71 0.633504
Target:  5'- gACCGGGUGCCggUCgGGGUgCGUGUagCCa -3'
miRNA:   3'- -UGGCCCGCGG--AGgCUCAgGUAUAg-GG- -5'
30212 3' -59.2 NC_006273.1 + 114545 0.66 0.890122
Target:  5'- cACgCGGcCGCCUuaaggCCGAGUCCAccgucgcgCCCg -3'
miRNA:   3'- -UG-GCCcGCGGA-----GGCUCAGGUaua-----GGG- -5'
30212 3' -59.2 NC_006273.1 + 116031 0.68 0.765486
Target:  5'- cCCGGGCGUCUCCauagaAG-CCGg--CCCg -3'
miRNA:   3'- uGGCCCGCGGAGGc----UCaGGUauaGGG- -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.