miRNA display CGI


Results 1 - 19 of 19 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
13216 3' -57.1 NC_003401.1 + 132434 0.66 0.83966
Target:  5'- cGGGCCCGggggGCGcgcgggGGACCCucgccCCGGG-Cg -3'
miRNA:   3'- -UUUGGGCa---UGUa-----CCUGGGu----GGCCCaG- -5'
13216 3' -57.1 NC_003401.1 + 18789 0.66 0.83966
Target:  5'- cAACCCacuggACAUaGuACCCGCCGuGGUCg -3'
miRNA:   3'- uUUGGGca---UGUAcC-UGGGUGGC-CCAG- -5'
13216 3' -57.1 NC_003401.1 + 19333 0.66 0.83134
Target:  5'- -cGCCCGUgguguACGUGGGCCUgACCGuGUg -3'
miRNA:   3'- uuUGGGCA-----UGUACCUGGG-UGGCcCAg -5'
13216 3' -57.1 NC_003401.1 + 111739 0.66 0.822837
Target:  5'- -uGCgaGUACGUguucaGGACgCaCACCGGGUCg -3'
miRNA:   3'- uuUGggCAUGUA-----CCUG-G-GUGGCCCAG- -5'
13216 3' -57.1 NC_003401.1 + 21286 0.66 0.822837
Target:  5'- gGAACCCGUACAccGGCCCcagaucgcccucGCgGcGGUCc -3'
miRNA:   3'- -UUUGGGCAUGUacCUGGG------------UGgC-CCAG- -5'
13216 3' -57.1 NC_003401.1 + 81386 0.66 0.822837
Target:  5'- aAAACCCGUcuucuuucACGUccaGACCCACCccccuGGUCg -3'
miRNA:   3'- -UUUGGGCA--------UGUAc--CUGGGUGGc----CCAG- -5'
13216 3' -57.1 NC_003401.1 + 17500 0.66 0.814157
Target:  5'- cGGACgCGgcgcGCGUGG-CCC-CCGGGUUc -3'
miRNA:   3'- -UUUGgGCa---UGUACCuGGGuGGCCCAG- -5'
13216 3' -57.1 NC_003401.1 + 118292 0.66 0.805309
Target:  5'- cGAGCCCGggGCccgcGGACCCGagUUGGGUUa -3'
miRNA:   3'- -UUUGGGCa-UGua--CCUGGGU--GGCCCAG- -5'
13216 3' -57.1 NC_003401.1 + 21189 0.67 0.749195
Target:  5'- gAggUCCGccgACAUGGGCCU-CgGGGUCc -3'
miRNA:   3'- -UuuGGGCa--UGUACCUGGGuGgCCCAG- -5'
13216 3' -57.1 NC_003401.1 + 64489 0.68 0.729556
Target:  5'- cGACCCGU-CAaGGACCCcGCCGGc-- -3'
miRNA:   3'- uUUGGGCAuGUaCCUGGG-UGGCCcag -5'
13216 3' -57.1 NC_003401.1 + 132676 0.68 0.729556
Target:  5'- cGGGCCCGggggGCGUcgGGGCgcggcgCCGCCGGGcUCg -3'
miRNA:   3'- -UUUGGGCa---UGUA--CCUG------GGUGGCCC-AG- -5'
13216 3' -57.1 NC_003401.1 + 89942 0.68 0.699479
Target:  5'- gAGACCCGc-CGUGGAUCCGCUGuGUUa -3'
miRNA:   3'- -UUUGGGCauGUACCUGGGUGGCcCAG- -5'
13216 3' -57.1 NC_003401.1 + 23592 0.68 0.699479
Target:  5'- cGACCCGgcgcgGCggGGAUUUuuCCGGGUCg -3'
miRNA:   3'- uUUGGGCa----UGuaCCUGGGu-GGCCCAG- -5'
13216 3' -57.1 NC_003401.1 + 42739 0.69 0.672986
Target:  5'- uGAGCCCGUcgcuuacguuGCGggGGugCCgcacucggacaacauACCGGGUCu -3'
miRNA:   3'- -UUUGGGCA----------UGUa-CCugGG---------------UGGCCCAG- -5'
13216 3' -57.1 NC_003401.1 + 14119 0.69 0.668886
Target:  5'- uAACCCGUACcUGGGCCC-UCGcGGa- -3'
miRNA:   3'- uUUGGGCAUGuACCUGGGuGGC-CCag -5'
13216 3' -57.1 NC_003401.1 + 14221 0.69 0.652442
Target:  5'- -cGCCCGgggGCGcuagagggugucggGGACCgGCCGGGUg -3'
miRNA:   3'- uuUGGGCa--UGUa-------------CCUGGgUGGCCCAg -5'
13216 3' -57.1 NC_003401.1 + 107710 0.7 0.627709
Target:  5'- uGACCCGaGgGUGGAggCCACCGGGg- -3'
miRNA:   3'- uUUGGGCaUgUACCUg-GGUGGCCCag -5'
13216 3' -57.1 NC_003401.1 + 44010 0.75 0.34704
Target:  5'- -cGCCCuggACGUGGAcCCCGuuGGGUCg -3'
miRNA:   3'- uuUGGGca-UGUACCU-GGGUggCCCAG- -5'
13216 3' -57.1 NC_003401.1 + 44684 1.07 0.002667
Target:  5'- uAAACCCGUACAUGGACCCACCGGGUCu -3'
miRNA:   3'- -UUUGGGCAUGUACCUGGGUGGCCCAG- -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.