miRNA display CGI


Results 1 - 20 of 31 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
17014 3' -58.2 NC_004333.2 + 21371 0.66 0.546895
Target:  5'- ---aGGCCGGGCcGucggCAACGaagcgcgccuacucgUCGGCa -3'
miRNA:   3'- accaCCGGCCCGuCua--GUUGC---------------AGCCG- -5'
17014 3' -58.2 NC_004333.2 + 31231 0.66 0.54266
Target:  5'- cGGUcgcgacGGCCGcGCGGcgCAGCGccgucUCGGUg -3'
miRNA:   3'- aCCA------CCGGCcCGUCuaGUUGC-----AGCCG- -5'
17014 3' -58.2 NC_004333.2 + 3119 0.66 0.54266
Target:  5'- cGGgcgcGGCCGcGCGGuguUCAGCGUUuGCg -3'
miRNA:   3'- aCCa---CCGGCcCGUCu--AGUUGCAGcCG- -5'
17014 3' -58.2 NC_004333.2 + 10034 0.66 0.54266
Target:  5'- cGGcGGCCGGGU----CGGCGUCGaacGCg -3'
miRNA:   3'- aCCaCCGGCCCGucuaGUUGCAGC---CG- -5'
17014 3' -58.2 NC_004333.2 + 5496 0.66 0.53212
Target:  5'- ---cGGCCGGcGUGGA--GACGaUCGGCg -3'
miRNA:   3'- accaCCGGCC-CGUCUagUUGC-AGCCG- -5'
17014 3' -58.2 NC_004333.2 + 29918 0.66 0.511269
Target:  5'- aGGUGuGCaGGGUucugcGGAUUAGCagcgugccGUCGGCg -3'
miRNA:   3'- aCCAC-CGgCCCG-----UCUAGUUG--------CAGCCG- -5'
17014 3' -58.2 NC_004333.2 + 22731 0.66 0.511269
Target:  5'- aUGGUGaaGCCGcuCGGGUCGACGaaccaCGGCg -3'
miRNA:   3'- -ACCAC--CGGCccGUCUAGUUGCa----GCCG- -5'
17014 3' -58.2 NC_004333.2 + 43737 0.66 0.500971
Target:  5'- cGaGUGGCC-GGCAGAcaaCAACG-CGGa -3'
miRNA:   3'- aC-CACCGGcCCGUCUa--GUUGCaGCCg -5'
17014 3' -58.2 NC_004333.2 + 6356 0.66 0.500971
Target:  5'- ---cGGCCGGGCGccGUCGugcCGUCGGg -3'
miRNA:   3'- accaCCGGCCCGUc-UAGUu--GCAGCCg -5'
17014 3' -58.2 NC_004333.2 + 7006 0.67 0.470652
Target:  5'- aGuUGGCCGGuGCAGAUucaucaaaCGGCGaaUCGGUc -3'
miRNA:   3'- aCcACCGGCC-CGUCUA--------GUUGC--AGCCG- -5'
17014 3' -58.2 NC_004333.2 + 32947 0.67 0.460753
Target:  5'- aGGUaGGCgugcgcguCGGGCAGcuuugCGACuUCGGCa -3'
miRNA:   3'- aCCA-CCG--------GCCCGUCua---GUUGcAGCCG- -5'
17014 3' -58.2 NC_004333.2 + 1194 0.67 0.460753
Target:  5'- cUGGUGGaagaaagCGGGUucGAUUAuugcuuguCGUCGGCg -3'
miRNA:   3'- -ACCACCg------GCCCGu-CUAGUu-------GCAGCCG- -5'
17014 3' -58.2 NC_004333.2 + 679 0.67 0.450966
Target:  5'- cUGGUcgcgccGGCCGGcGCcucguUCAGCG-CGGCa -3'
miRNA:   3'- -ACCA------CCGGCC-CGucu--AGUUGCaGCCG- -5'
17014 3' -58.2 NC_004333.2 + 35792 0.68 0.422309
Target:  5'- cUGGcGcGCCGGGCGGggCGcggGCGggcgcuaCGGCg -3'
miRNA:   3'- -ACCaC-CGGCCCGUCuaGU---UGCa------GCCG- -5'
17014 3' -58.2 NC_004333.2 + 25996 0.68 0.403824
Target:  5'- gGGUucGGuUCGGGCAGGUUcAUGUCaGCa -3'
miRNA:   3'- aCCA--CC-GGCCCGUCUAGuUGCAGcCG- -5'
17014 3' -58.2 NC_004333.2 + 2972 0.68 0.403824
Target:  5'- -cGUGGCCGGGCu--UCGugGcgCGGa -3'
miRNA:   3'- acCACCGGCCCGucuAGUugCa-GCCg -5'
17014 3' -58.2 NC_004333.2 + 31277 0.68 0.403824
Target:  5'- gGGcGcCCGGGCaccAGAUCAGgcaGUCGGCc -3'
miRNA:   3'- aCCaCcGGCCCG---UCUAGUUg--CAGCCG- -5'
17014 3' -58.2 NC_004333.2 + 31515 0.68 0.394775
Target:  5'- cGGUGcagcaCCGGGCAGGUCGAagugcUGUC-GCa -3'
miRNA:   3'- aCCACc----GGCCCGUCUAGUU-----GCAGcCG- -5'
17014 3' -58.2 NC_004333.2 + 40330 0.69 0.377076
Target:  5'- cUGGaaaUGGCCGGcGCAGG-CcGCGUCgaucuGGCg -3'
miRNA:   3'- -ACC---ACCGGCC-CGUCUaGuUGCAG-----CCG- -5'
17014 3' -58.2 NC_004333.2 + 38654 0.69 0.368429
Target:  5'- gGGcGGCaCGGGCAaGUCGuacuuCGUCGaGCa -3'
miRNA:   3'- aCCaCCG-GCCCGUcUAGUu----GCAGC-CG- -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.