miRNA display CGI


Results 1 - 20 of 21 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
5312 5' -57.9 NC_001798.1 + 114565 0.66 0.830077
Target:  5'- gUCCAGGcCGUcCUGGGgGCguuugagcGCgGCa -3'
miRNA:   3'- aAGGUCCuGCAaGACCCaCGa-------CGgCG- -5'
5312 5' -57.9 NC_001798.1 + 139565 0.66 0.830077
Target:  5'- gUUCCGGGACGUggcggccUUGGaGgucccgaccgGcCUGCCGCu -3'
miRNA:   3'- -AAGGUCCUGCAa------GACC-Ca---------C-GACGGCG- -5'
5312 5' -57.9 NC_001798.1 + 134679 0.66 0.813023
Target:  5'- --gCGGGucACGgcgcGGGUGCUGCUGCc -3'
miRNA:   3'- aagGUCC--UGCaagaCCCACGACGGCG- -5'
5312 5' -57.9 NC_001798.1 + 20513 0.66 0.813023
Target:  5'- -gCCGGGGC---CUGGGguUGC-GCCGCg -3'
miRNA:   3'- aaGGUCCUGcaaGACCC--ACGaCGGCG- -5'
5312 5' -57.9 NC_001798.1 + 44276 0.66 0.795315
Target:  5'- --aCAGGGgGgc---GGUGCUGCCGCu -3'
miRNA:   3'- aagGUCCUgCaagacCCACGACGGCG- -5'
5312 5' -57.9 NC_001798.1 + 123919 0.66 0.790794
Target:  5'- aUCCGGGGCGUgcugugccCUGGGUccgggggccuggugGCaccuccccggcgGCCGCa -3'
miRNA:   3'- aAGGUCCUGCAa-------GACCCA--------------CGa-----------CGGCG- -5'
5312 5' -57.9 NC_001798.1 + 133546 0.67 0.786238
Target:  5'- aUCUGGGGCGaacugUUCgGGGUGCaGCUGg -3'
miRNA:   3'- aAGGUCCUGC-----AAGaCCCACGaCGGCg -5'
5312 5' -57.9 NC_001798.1 + 150189 0.67 0.786238
Target:  5'- cUCCgcggcguggGGGGCGgcaccggGGGUGUuggUGCCGCg -3'
miRNA:   3'- aAGG---------UCCUGCaaga---CCCACG---ACGGCG- -5'
5312 5' -57.9 NC_001798.1 + 66021 0.67 0.74864
Target:  5'- -cCCAGGGCGa--UGuGGcGCaUGCCGCg -3'
miRNA:   3'- aaGGUCCUGCaagAC-CCaCG-ACGGCG- -5'
5312 5' -57.9 NC_001798.1 + 105405 0.67 0.747676
Target:  5'- cUCCAGGGCcgccgcggccgcgGUgcgCUGGGccUGCagcacUGCCGCc -3'
miRNA:   3'- aAGGUCCUG-------------CAa--GACCC--ACG-----ACGGCG- -5'
5312 5' -57.9 NC_001798.1 + 27274 0.68 0.729194
Target:  5'- -cCCGuGGCGcgCgggGGGgagggGCUGCCGCg -3'
miRNA:   3'- aaGGUcCUGCaaGa--CCCa----CGACGGCG- -5'
5312 5' -57.9 NC_001798.1 + 78939 0.68 0.679279
Target:  5'- ---uGGGACGaggUCUGGGgucGCUuugGCCGCg -3'
miRNA:   3'- aaggUCCUGCa--AGACCCa--CGA---CGGCG- -5'
5312 5' -57.9 NC_001798.1 + 122825 0.69 0.658982
Target:  5'- -gCCAGGGCGgUCgGGGgcgGCgGCgGCg -3'
miRNA:   3'- aaGGUCCUGCaAGaCCCa--CGaCGgCG- -5'
5312 5' -57.9 NC_001798.1 + 153756 0.69 0.648796
Target:  5'- -gCCAGGugGggCggaaggGGGcGCUGCgGCc -3'
miRNA:   3'- aaGGUCCugCaaGa-----CCCaCGACGgCG- -5'
5312 5' -57.9 NC_001798.1 + 79102 0.69 0.628395
Target:  5'- -aCCAGGGCGUcCUGGGcGCcaagGgCGCc -3'
miRNA:   3'- aaGGUCCUGCAaGACCCaCGa---CgGCG- -5'
5312 5' -57.9 NC_001798.1 + 44888 0.69 0.628395
Target:  5'- gUUCCGGGAUGgcgucccugCUcGGGUGCUG-UGCg -3'
miRNA:   3'- -AAGGUCCUGCaa-------GA-CCCACGACgGCG- -5'
5312 5' -57.9 NC_001798.1 + 108860 0.71 0.5277
Target:  5'- --gCGGGcugGCGUUC-GGGUGCgacGCCGCg -3'
miRNA:   3'- aagGUCC---UGCAAGaCCCACGa--CGGCG- -5'
5312 5' -57.9 NC_001798.1 + 135456 0.71 0.5277
Target:  5'- -aCCGGGgcuGCGUUCUGGGgGCUGUucaaCGUg -3'
miRNA:   3'- aaGGUCC---UGCAAGACCCaCGACG----GCG- -5'
5312 5' -57.9 NC_001798.1 + 24893 0.72 0.470138
Target:  5'- -gCCGGGGCc--CUGGGcccggcGCUGCCGCg -3'
miRNA:   3'- aaGGUCCUGcaaGACCCa-----CGACGGCG- -5'
5312 5' -57.9 NC_001798.1 + 27218 0.72 0.460851
Target:  5'- -cCCGGGGCGgggCgcgGGGgagGCgGCCGCg -3'
miRNA:   3'- aaGGUCCUGCaa-Ga--CCCa--CGaCGGCG- -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.