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 + 151980 0.67 0.853571
Target:  5'- cGCuCGGGCGCCgCCGGG-CCGgGUggcggcggcagcagCCCg -3'
miRNA:   3'- -UG-GCCCGCGGaGGCUCaGGUaUA--------------GGG- -5'
30212 3' -59.2 NC_006273.1 + 195979 0.68 0.765486
Target:  5'- cGCCGGGCGCCccUCCGAGUagcggcaaCAacagcaacuuuUGgcacggCCCg -3'
miRNA:   3'- -UGGCCCGCGG--AGGCUCAg-------GU-----------AUa-----GGG- -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 + 123352 0.67 0.825037
Target:  5'- -gUGGGCGUCagaUCCGcGUCCGUugAUUCCg -3'
miRNA:   3'- ugGCCCGCGG---AGGCuCAGGUA--UAGGG- -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 + 233376 0.67 0.832974
Target:  5'- cGCCGGcG-GCCUCCGucUCCGUG-CCg -3'
miRNA:   3'- -UGGCC-CgCGGAGGCucAGGUAUaGGg -5'
30212 3' -59.2 NC_006273.1 + 197181 0.67 0.840748
Target:  5'- aGCUGGGCGCCgugUUCGGGUaCUg---CCCg -3'
miRNA:   3'- -UGGCCCGCGG---AGGCUCA-GGuauaGGG- -5'
30212 3' -59.2 NC_006273.1 + 233662 0.67 0.840748
Target:  5'- cGCCGGcGCaGCUcccgUCCGAGcgCCGUcgCCUc -3'
miRNA:   3'- -UGGCC-CG-CGG----AGGCUCa-GGUAuaGGG- -5'
30212 3' -59.2 NC_006273.1 + 139944 0.67 0.848352
Target:  5'- cGCUGGuG-GCCUgCGAGgCCGUGUCaCCu -3'
miRNA:   3'- -UGGCC-CgCGGAgGCUCaGGUAUAG-GG- -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 + 71509 0.69 0.747406
Target:  5'- cACCGGGUgggugGCCUCUGAGaUCUcgGUCg- -3'
miRNA:   3'- -UGGCCCG-----CGGAGGCUC-AGGuaUAGgg -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 + 188151 0.72 0.547208
Target:  5'- gGCCGGGuCGCCgaguUCCGGGUCgGgcacAUCCa -3'
miRNA:   3'- -UGGCCC-GCGG----AGGCUCAGgUa---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 + 210007 0.71 0.59489
Target:  5'- -gCGGGuCGCCagCCGGGUCUcuuggAUCCCg -3'
miRNA:   3'- ugGCCC-GCGGa-GGCUCAGGua---UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 163664 0.71 0.623836
Target:  5'- cGCCGGGCGaCgUCgGGGUCgGg--CCCg -3'
miRNA:   3'- -UGGCCCGC-GgAGgCUCAGgUauaGGG- -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 + 200634 0.7 0.652831
Target:  5'- gGCCGGG-GCa-CCGAGUCCGcgaGUCUCa -3'
miRNA:   3'- -UGGCCCgCGgaGGCUCAGGUa--UAGGG- -5'
30212 3' -59.2 NC_006273.1 + 152053 0.7 0.691251
Target:  5'- cGCCGGGUcCCaccacgCCGGGUCCA---CCCg -3'
miRNA:   3'- -UGGCCCGcGGa-----GGCUCAGGUauaGGG- -5'
30212 3' -59.2 NC_006273.1 + 178359 0.7 0.691251
Target:  5'- gGCCGcGGaCGCCUCCuccuccucGUCCcaGUCCCg -3'
miRNA:   3'- -UGGC-CC-GCGGAGGcu------CAGGuaUAGGG- -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.