miRNA display CGI


Results 1 - 20 of 33 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
28423 5' -58.6 NC_005946.1 + 99171 0.66 0.749936
Target:  5'- gCCgggaGAGGCg--CUCCa--AGAGGCCc -3'
miRNA:   3'- gGGa---CUCCGacaGAGGgugUCUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 27417 0.66 0.749936
Target:  5'- cUCCUGAGGUcggUGcccugguuggauUCUaCCCACGucAGGCCg -3'
miRNA:   3'- -GGGACUCCG---AC------------AGA-GGGUGUc-UCCGG- -5'
28423 5' -58.6 NC_005946.1 + 41954 0.66 0.740218
Target:  5'- aCCCgGGGGUcccuUGUCgcccuuuggCCCuCuGGGGCCa -3'
miRNA:   3'- -GGGaCUCCG----ACAGa--------GGGuGuCUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 95333 0.66 0.740218
Target:  5'- cCCCcGAGGCgaUUUCCCcCGgcgcccguggacGAGGCCa -3'
miRNA:   3'- -GGGaCUCCGacAGAGGGuGU------------CUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 10947 0.66 0.740218
Target:  5'- cCCCUGAGGagcCUGUaggaCUCUaCACcgGGAGuGCCg -3'
miRNA:   3'- -GGGACUCC---GACA----GAGG-GUG--UCUC-CGG- -5'
28423 5' -58.6 NC_005946.1 + 78585 0.66 0.740218
Target:  5'- aCCCcGAGGCcGUCUUU----GAGGCCa -3'
miRNA:   3'- -GGGaCUCCGaCAGAGGguguCUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 50223 0.66 0.730405
Target:  5'- -aCUGcauGGGCU--UUCCCuCGGAGGCCc -3'
miRNA:   3'- ggGAC---UCCGAcaGAGGGuGUCUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 74529 0.66 0.730405
Target:  5'- aCC-GAGGgUGcCUCCCugacgGCGGcGGCCu -3'
miRNA:   3'- gGGaCUCCgACaGAGGG-----UGUCuCCGG- -5'
28423 5' -58.6 NC_005946.1 + 35324 0.66 0.720506
Target:  5'- uCCC--AGGUcccaUCCCAgGGAGGCCg -3'
miRNA:   3'- -GGGacUCCGacagAGGGUgUCUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 22186 0.66 0.720506
Target:  5'- aCCCUcGGGCUGgCUgCCCugGccGcGGCCg -3'
miRNA:   3'- -GGGAcUCCGACaGA-GGGugU--CuCCGG- -5'
28423 5' -58.6 NC_005946.1 + 85768 0.66 0.719512
Target:  5'- cCUCUGAaagGGUUGUCUCUCACAagacucucuacgaGAGGg- -3'
miRNA:   3'- -GGGACU---CCGACAGAGGGUGU-------------CUCCgg -5'
28423 5' -58.6 NC_005946.1 + 59649 0.66 0.718517
Target:  5'- gCCUGGGGaC-GUagcccagggccaccgCUccuccuccuaugagaCCCACAGAGGCCa -3'
miRNA:   3'- gGGACUCC-GaCA---------------GA---------------GGGUGUCUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 79264 0.66 0.70049
Target:  5'- aCCUUGAGGCcGUaCUuggagaggaccCUCGCGGcGGCCu -3'
miRNA:   3'- -GGGACUCCGaCA-GA-----------GGGUGUCuCCGG- -5'
28423 5' -58.6 NC_005946.1 + 19919 0.67 0.680242
Target:  5'- aCCgaaggcGAGGaggGUCUCCa--AGAGGCCc -3'
miRNA:   3'- gGGa-----CUCCga-CAGAGGgugUCUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 42188 0.67 0.670054
Target:  5'- aCCCUGGGGCca-CUCgggCCACucGGGCCc -3'
miRNA:   3'- -GGGACUCCGacaGAG---GGUGucUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 35100 0.67 0.670054
Target:  5'- aCCUGucuaGCUGUCccUCCCACcccaGGAGGUUc -3'
miRNA:   3'- gGGACuc--CGACAG--AGGGUG----UCUCCGG- -5'
28423 5' -58.6 NC_005946.1 + 19452 0.67 0.659836
Target:  5'- ---aGAGGCUGUCgaccagagcUCCCGCGgcgcuccuGAGGCa -3'
miRNA:   3'- gggaCUCCGACAG---------AGGGUGU--------CUCCGg -5'
28423 5' -58.6 NC_005946.1 + 82603 0.67 0.659836
Target:  5'- gCCgGAGGCUGUCccaacgUCCUGCccuucAGGCCc -3'
miRNA:   3'- gGGaCUCCGACAG------AGGGUGuc---UCCGG- -5'
28423 5' -58.6 NC_005946.1 + 47840 0.67 0.649594
Target:  5'- uUCCUGAaaggagacGGuCUGUCcagUCCCGCAGAccugGGCa -3'
miRNA:   3'- -GGGACU--------CC-GACAG---AGGGUGUCU----CCGg -5'
28423 5' -58.6 NC_005946.1 + 52943 0.67 0.639339
Target:  5'- uCCCUGGGcgcgauGCUGUCcgcUCCCGuCGuGAGaGCCu -3'
miRNA:   3'- -GGGACUC------CGACAG---AGGGU-GU-CUC-CGG- -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.