miRNA display CGI


Results 1 - 20 of 30 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
26040 3' -58.2 NC_005342.2 + 21152 0.66 0.545549
Target:  5'- ---aGGCCGGGCcGucggCAACGaagcgcgccuacucgUCGGCa -3'
miRNA:   3'- accaCCGGCCCGuCua--GUUGC---------------AGCCG- -5'
26040 3' -58.2 NC_005342.2 + 30945 0.66 0.541315
Target:  5'- cGGUcgcgacGGCCGcGCGGcgCAGCGccgucUCGGUg -3'
miRNA:   3'- aCCA------CCGGCcCGUCuaGUUGC-----AGCCG- -5'
26040 3' -58.2 NC_005342.2 + 10098 0.66 0.541315
Target:  5'- cGGcGGCCGGGU----CGGCGUCGaacGCg -3'
miRNA:   3'- aCCaCCGGCCCGucuaGUUGCAGC---CG- -5'
26040 3' -58.2 NC_005342.2 + 5560 0.66 0.53078
Target:  5'- ---cGGCCGGcGUGGA--GACGaUCGGCg -3'
miRNA:   3'- accaCCGGCC-CGUCUagUUGC-AGCCG- -5'
26040 3' -58.2 NC_005342.2 + 22727 0.66 0.509944
Target:  5'- aUGGUGaaGCCGcuCGGGUCGACGaaccaCGGCg -3'
miRNA:   3'- -ACCAC--CGGCccGUCUAGUUGCa----GCCG- -5'
26040 3' -58.2 NC_005342.2 + 43540 0.66 0.499654
Target:  5'- cGaGUGGCC-GGCAGAcaaCAACG-CGGa -3'
miRNA:   3'- aC-CACCGGcCCGUCUa--GUUGCaGCCg -5'
26040 3' -58.2 NC_005342.2 + 6420 0.66 0.499654
Target:  5'- ---cGGCCGGGCGccGUCGugcCGUCGGg -3'
miRNA:   3'- accaCCGGCCCGUc-UAGUu--GCAGCCg -5'
26040 3' -58.2 NC_005342.2 + 2674 0.67 0.479359
Target:  5'- cGGcGGCCGacaGGCcGAgcu-CGUCGGCg -3'
miRNA:   3'- aCCaCCGGC---CCGuCUaguuGCAGCCG- -5'
26040 3' -58.2 NC_005342.2 + 32662 0.67 0.459476
Target:  5'- aGGUaGGCgugcgcguCGGGCAGcuuugCGACuUCGGCa -3'
miRNA:   3'- aCCA-CCG--------GCCCGUCua---GUUGcAGCCG- -5'
26040 3' -58.2 NC_005342.2 + 707 0.67 0.449701
Target:  5'- cUGGUcgcgccGGCCGGcGCcucguUCAGCG-CGGCa -3'
miRNA:   3'- -ACCA------CCGGCC-CGucu--AGUUGCaGCCG- -5'
26040 3' -58.2 NC_005342.2 + 22817 0.67 0.440041
Target:  5'- cGGUGGUauCGGGCAGGccgCgAACGUgCGcGCc -3'
miRNA:   3'- aCCACCG--GCCCGUCUa--G-UUGCA-GC-CG- -5'
26040 3' -58.2 NC_005342.2 + 35595 0.68 0.421081
Target:  5'- cUGGcGcGCCGGGCGGggCGcggGCGggcgcuaCGGCg -3'
miRNA:   3'- -ACCaC-CGGCCCGUCuaGU---UGCa------GCCG- -5'
26040 3' -58.2 NC_005342.2 + 25992 0.68 0.402624
Target:  5'- gGGUucGGuUCGGGCAGGUUcAUGUCaGCa -3'
miRNA:   3'- aCCA--CC-GGCCCGUCUAGuUGCAGcCG- -5'
26040 3' -58.2 NC_005342.2 + 3032 0.68 0.402624
Target:  5'- -cGUGGCCGGGCu--UCGugGcgCGGa -3'
miRNA:   3'- acCACCGGCCCGucuAGUugCa-GCCg -5'
26040 3' -58.2 NC_005342.2 + 17934 0.68 0.402624
Target:  5'- gGGUGGCgucGCAGGUgCGACGgCGGCc -3'
miRNA:   3'- aCCACCGgccCGUCUA-GUUGCaGCCG- -5'
26040 3' -58.2 NC_005342.2 + 31084 0.68 0.402624
Target:  5'- gGGcGcCCGGGCaccAGAUCAGgcaGUCGGCc -3'
miRNA:   3'- aCCaCcGGCCCG---UCUAGUUg--CAGCCG- -5'
26040 3' -58.2 NC_005342.2 + 31322 0.68 0.393589
Target:  5'- cGGUGcagcaCCGGGCAGGUCGAagugcUGUC-GCa -3'
miRNA:   3'- aCCACc----GGCCCGUCUAGUU-----GCAGcCG- -5'
26040 3' -58.2 NC_005342.2 + 40133 0.69 0.37592
Target:  5'- cUGGaaaUGGCCGGcGCAGG-CcGCGUCgaucuGGCg -3'
miRNA:   3'- -ACC---ACCGGCC-CGUCUaGuUGCAG-----CCG- -5'
26040 3' -58.2 NC_005342.2 + 38367 0.69 0.367288
Target:  5'- gGGcGGCaCGGGCAaGUCGuacuuCGUCGaGCa -3'
miRNA:   3'- aCCaCCG-GCCCGUcUAGUu----GCAGC-CG- -5'
26040 3' -58.2 NC_005342.2 + 41428 0.69 0.367288
Target:  5'- gGGcGGCaCGGcGC-GAUCAACGaggagaUCGGCg -3'
miRNA:   3'- aCCaCCG-GCC-CGuCUAGUUGC------AGCCG- -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.