miRNA display CGI


Results 1 - 20 of 32 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
30433 3' -65.2 NC_006548.1 + 14025 1.11 0.000056
Target:  5'- cCGGCCCCUCGUAGGCGCCCACCGGCCg -3'
miRNA:   3'- -GCCGGGGAGCAUCCGCGGGUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 24403 0.78 0.024244
Target:  5'- cCGGCCUgCUCaGUuugccauugggcAGGCGCUCGCCGGCCc -3'
miRNA:   3'- -GCCGGG-GAG-CA------------UCCGCGGGUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 12977 0.74 0.05
Target:  5'- aCGGCUCCgcaagcuacgacCGUGGGUaCgCCACCGGCCg -3'
miRNA:   3'- -GCCGGGGa-----------GCAUCCGcG-GGUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 13740 0.71 0.08495
Target:  5'- gCGGCCUgCUCGauGGCGUCCAgCCGGUa -3'
miRNA:   3'- -GCCGGG-GAGCauCCGCGGGU-GGCCGg -5'
30433 3' -65.2 NC_006548.1 + 36180 0.71 0.085883
Target:  5'- gGuGCCCCUCGUgaGGGUGCCauagucgaucuuuCCGGCg -3'
miRNA:   3'- gC-CGGGGAGCA--UCCGCGGgu-----------GGCCGg -5'
30433 3' -65.2 NC_006548.1 + 33217 0.7 0.111425
Target:  5'- uCGGaCUCCUCGggccGCuGCCCgagcACCGGCCa -3'
miRNA:   3'- -GCC-GGGGAGCauc-CG-CGGG----UGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 21117 0.7 0.114155
Target:  5'- aCGGCCUCggUCGUGcugauauGGCGUCCAgCCuGCCg -3'
miRNA:   3'- -GCCGGGG--AGCAU-------CCGCGGGU-GGcCGG- -5'
30433 3' -65.2 NC_006548.1 + 14245 0.69 0.12077
Target:  5'- gGGCCUacaUCGagGGGCGCCUgGCCgauGGCCg -3'
miRNA:   3'- gCCGGGg--AGCa-UCCGCGGG-UGG---CCGG- -5'
30433 3' -65.2 NC_006548.1 + 20219 0.69 0.12077
Target:  5'- uCGGCuUCCUCGgugccGUG-CCGCCGGCCa -3'
miRNA:   3'- -GCCG-GGGAGCauc--CGCgGGUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 32960 0.69 0.12077
Target:  5'- uGGCgcgCCCg-GUGcagcGGCGCUgGCCGGCCg -3'
miRNA:   3'- gCCG---GGGagCAU----CCGCGGgUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 14403 0.69 0.134365
Target:  5'- aCGGCUgCaCGgcUGGGCaGCUCGCCGGCUu -3'
miRNA:   3'- -GCCGGgGaGC--AUCCG-CGGGUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 11881 0.68 0.145471
Target:  5'- uCGGCCaaCCuggaggUCGUAGGUGCCUgGCUGcGCCg -3'
miRNA:   3'- -GCCGG--GG------AGCAUCCGCGGG-UGGC-CGG- -5'
30433 3' -65.2 NC_006548.1 + 854 0.68 0.145471
Target:  5'- aGGUCCaggucaUCG-AGGCGCa-GCUGGCCg -3'
miRNA:   3'- gCCGGGg-----AGCaUCCGCGggUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 36334 0.68 0.149356
Target:  5'- aGGCaUCCUCGcugcgcUGGGCaugcgGCCguCCGGCCu -3'
miRNA:   3'- gCCG-GGGAGC------AUCCG-----CGGguGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 22420 0.68 0.149356
Target:  5'- gCGGCUuaauCCUCaacUGGGCGgCCGCUcuGGCCg -3'
miRNA:   3'- -GCCGG----GGAGc--AUCCGCgGGUGG--CCGG- -5'
30433 3' -65.2 NC_006548.1 + 19997 0.68 0.149356
Target:  5'- aGGCCCCgcUCGUcaucGGCcacCCCaagcucaaugcGCCGGCCu -3'
miRNA:   3'- gCCGGGG--AGCAu---CCGc--GGG-----------UGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 36876 0.68 0.149356
Target:  5'- aCGGUgugcugaCCgugUCGUGGGCGCaCCgcaACCGGCUg -3'
miRNA:   3'- -GCCGg------GG---AGCAUCCGCG-GG---UGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 1165 0.68 0.154953
Target:  5'- aGGCUCgCUCGcgaauUGGGCGUCagcgaugcugagcugCGCCGGCUg -3'
miRNA:   3'- gCCGGG-GAGC-----AUCCGCGG---------------GUGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 2317 0.67 0.165854
Target:  5'- uCGGCUgCgCGgcGGCGCCggagcugACCGGCUa -3'
miRNA:   3'- -GCCGGgGaGCauCCGCGGg------UGGCCGG- -5'
30433 3' -65.2 NC_006548.1 + 23777 0.67 0.165854
Target:  5'- uGGCCCaggagacucuCUCacccaaGCCCGCCGGCCa -3'
miRNA:   3'- gCCGGG----------GAGcauccgCGGGUGGCCGG- -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.