miRNA display CGI


Results 1 - 20 of 40 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
30554 3' -55.4 NC_006548.1 + 25356 0.66 0.596899
Target:  5'- uGCGC-GA-CCAGCgAAUGGUGGGcggcaaggacGCCg -3'
miRNA:   3'- uCGCGuCUaGGUCG-UUACCGUCC----------UGG- -5'
30554 3' -55.4 NC_006548.1 + 27953 0.66 0.596899
Target:  5'- gAGCuGCAGAaCUAGCuccugGGUcuGGACCu -3'
miRNA:   3'- -UCG-CGUCUaGGUCGuua--CCGu-CCUGG- -5'
30554 3' -55.4 NC_006548.1 + 34348 0.66 0.596899
Target:  5'- cAGCGCGGcAUCgAGCAAcacacgGGCA--ACCg -3'
miRNA:   3'- -UCGCGUC-UAGgUCGUUa-----CCGUccUGG- -5'
30554 3' -55.4 NC_006548.1 + 36198 0.66 0.585557
Target:  5'- cAGCGCGGugaUGGCGAUGGUgccccucgugaGGGugCc -3'
miRNA:   3'- -UCGCGUCuagGUCGUUACCG-----------UCCugG- -5'
30554 3' -55.4 NC_006548.1 + 9600 0.66 0.57313
Target:  5'- gAGCGCGGcgcgCCAGguGUccaucggGGuCGGGAUCa -3'
miRNA:   3'- -UCGCGUCua--GGUCguUA-------CC-GUCCUGG- -5'
30554 3' -55.4 NC_006548.1 + 22719 0.66 0.564131
Target:  5'- aGGCGCAGAaggugcucgugccggCCGGCGAUGa-AGuGGCCa -3'
miRNA:   3'- -UCGCGUCUa--------------GGUCGUUACcgUC-CUGG- -5'
30554 3' -55.4 NC_006548.1 + 21016 0.66 0.564131
Target:  5'- gAGCGCAGAgcuaucaggaagaaCAGCGGcaGGCuGGACg -3'
miRNA:   3'- -UCGCGUCUag------------GUCGUUa-CCGuCCUGg -5'
30554 3' -55.4 NC_006548.1 + 14082 0.66 0.563009
Target:  5'- cGCgGCGGAucUCCAGCGguGUGGCgucgGGGuACUc -3'
miRNA:   3'- uCG-CGUCU--AGGUCGU--UACCG----UCC-UGG- -5'
30554 3' -55.4 NC_006548.1 + 12129 0.66 0.55182
Target:  5'- cAGCGCAccGAcCCAGCAugcucGGCGccGGACg -3'
miRNA:   3'- -UCGCGU--CUaGGUCGUua---CCGU--CCUGg -5'
30554 3' -55.4 NC_006548.1 + 22589 0.66 0.55182
Target:  5'- cGGCgGCuguGcgCCGGUAGUGGUuGGugCg -3'
miRNA:   3'- -UCG-CGu--CuaGGUCGUUACCGuCCugG- -5'
30554 3' -55.4 NC_006548.1 + 8188 0.66 0.55182
Target:  5'- uGGCGCAG-UUCGGCGAcGGCcucccuuacGACCg -3'
miRNA:   3'- -UCGCGUCuAGGUCGUUaCCGuc-------CUGG- -5'
30554 3' -55.4 NC_006548.1 + 13743 0.66 0.550705
Target:  5'- cGCGCGGccugcucgauggcGUCCAGCc--GGUAGGAg- -3'
miRNA:   3'- uCGCGUC-------------UAGGUCGuuaCCGUCCUgg -5'
30554 3' -55.4 NC_006548.1 + 31074 0.66 0.545139
Target:  5'- uGGCGC---UCCGGCAacccGUGGCucuacgcaaucaggaAGGACUg -3'
miRNA:   3'- -UCGCGucuAGGUCGU----UACCG---------------UCCUGG- -5'
30554 3' -55.4 NC_006548.1 + 14992 0.66 0.540699
Target:  5'- cGCGCGGAcUCggCAGCAGUgcgcucaccGGCAgcauaggcgguGGACCa -3'
miRNA:   3'- uCGCGUCU-AG--GUCGUUA---------CCGU-----------CCUGG- -5'
30554 3' -55.4 NC_006548.1 + 27861 0.66 0.540699
Target:  5'- uGGaGCAGAUggUCAGCAagGGCaAGGuCCa -3'
miRNA:   3'- -UCgCGUCUA--GGUCGUuaCCG-UCCuGG- -5'
30554 3' -55.4 NC_006548.1 + 12749 0.67 0.523068
Target:  5'- uGGCGguGAUUCAGCGGcUGuucGCAGGcagucgcgacuuccuACCg -3'
miRNA:   3'- -UCGCguCUAGGUCGUU-AC---CGUCC---------------UGG- -5'
30554 3' -55.4 NC_006548.1 + 8042 0.67 0.518694
Target:  5'- aGGCGCuuuccggcuUCCAGC-AUGGCuucugccgacuGGGCCa -3'
miRNA:   3'- -UCGCGucu------AGGUCGuUACCGu----------CCUGG- -5'
30554 3' -55.4 NC_006548.1 + 24004 0.67 0.507825
Target:  5'- gGGCGguG-UCCAGCcgau-CAGGGCCu -3'
miRNA:   3'- -UCGCguCuAGGUCGuuaccGUCCUGG- -5'
30554 3' -55.4 NC_006548.1 + 30838 0.67 0.497053
Target:  5'- uGCGaCAGugaaaccgagCCAGCGcccGGCGGGAUCg -3'
miRNA:   3'- uCGC-GUCua--------GGUCGUua-CCGUCCUGG- -5'
30554 3' -55.4 NC_006548.1 + 4250 0.67 0.497053
Target:  5'- gGGCGCGGGUggcguuguugaCGGCAuccaGGCAucGGGCCa -3'
miRNA:   3'- -UCGCGUCUAg----------GUCGUua--CCGU--CCUGG- -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.