miRNA display CGI


Results 1 - 20 of 53 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
23037 3' -61.8 NC_005178.1 + 35467 0.72 0.101979
Target:  5'- uGGC-GGCCAGCGCCgGGgCCAGUugGCc -3'
miRNA:   3'- -CCGaCCGGUCGUGGaCCaGGUCG--CGa -5'
23037 3' -61.8 NC_005178.1 + 35284 0.68 0.192304
Target:  5'- ---cGGCCaAGCAUCUGG-CCGGgGCUc -3'
miRNA:   3'- ccgaCCGG-UCGUGGACCaGGUCgCGA- -5'
23037 3' -61.8 NC_005178.1 + 35051 0.88 0.005944
Target:  5'- aGGCUGGUCGGCGCCUcGG-CCAGCGCg -3'
miRNA:   3'- -CCGACCGGUCGUGGA-CCaGGUCGCGa -5'
23037 3' -61.8 NC_005178.1 + 34497 0.67 0.243701
Target:  5'- aGCUGGCuCGGCGCCagggaGGUCgAGC-Cg -3'
miRNA:   3'- cCGACCG-GUCGUGGa----CCAGgUCGcGa -5'
23037 3' -61.8 NC_005178.1 + 33925 0.68 0.192304
Target:  5'- cGGC-GGCCGGUGCC-GGcuuUCCGGgGCg -3'
miRNA:   3'- -CCGaCCGGUCGUGGaCC---AGGUCgCGa -5'
23037 3' -61.8 NC_005178.1 + 32068 0.66 0.252654
Target:  5'- cGGCgugGGUCGGCACCcauagcggcuucugcUGG-CC-GCGCa -3'
miRNA:   3'- -CCGa--CCGGUCGUGG---------------ACCaGGuCGCGa -5'
23037 3' -61.8 NC_005178.1 + 31307 0.67 0.237469
Target:  5'- aGCgccgGGCUAuGCGCCUGGcgCC-GCGCc -3'
miRNA:   3'- cCGa---CCGGU-CGUGGACCa-GGuCGCGa -5'
23037 3' -61.8 NC_005178.1 + 28459 0.71 0.117378
Target:  5'- cGCUGGUCGGUguGCCUGGUCCcuggaccuGGcCGCc -3'
miRNA:   3'- cCGACCGGUCG--UGGACCAGG--------UC-GCGa -5'
23037 3' -61.8 NC_005178.1 + 28309 0.66 0.263215
Target:  5'- cGGC-GGCCAGCgaggcggcagcgGCCUGGauagcggCGGCGCc -3'
miRNA:   3'- -CCGaCCGGUCG------------UGGACCag-----GUCGCGa -5'
23037 3' -61.8 NC_005178.1 + 28261 0.72 0.104603
Target:  5'- cGCUGGCCGcCGCCaaUGGUgucaguggggugaCCGGCGCUg -3'
miRNA:   3'- cCGACCGGUcGUGG--ACCA-------------GGUCGCGA- -5'
23037 3' -61.8 NC_005178.1 + 28155 0.69 0.17314
Target:  5'- gGGCUgacGGUCGGCGCCUcGGcuguauccgccucggCCGGCGCc -3'
miRNA:   3'- -CCGA---CCGGUCGUGGA-CCa--------------GGUCGCGa -5'
23037 3' -61.8 NC_005178.1 + 27799 0.67 0.243701
Target:  5'- -aCUGGCU--CGCCaGGUCCAgGCGCUg -3'
miRNA:   3'- ccGACCGGucGUGGaCCAGGU-CGCGA- -5'
23037 3' -61.8 NC_005178.1 + 27538 0.68 0.202836
Target:  5'- -cCUGGCCucGGCGaucuUCUGGUCCAG-GCUg -3'
miRNA:   3'- ccGACCGG--UCGU----GGACCAGGUCgCGA- -5'
23037 3' -61.8 NC_005178.1 + 26714 0.69 0.163542
Target:  5'- gGGgUGGCCaagGGCGCCUGGgacgaaaugCuCGGCGUg -3'
miRNA:   3'- -CCgACCGG---UCGUGGACCa--------G-GUCGCGa -5'
23037 3' -61.8 NC_005178.1 + 25865 0.67 0.221889
Target:  5'- cGGCaGGUCAGUACCgccaGGccaugcggcaguugCCGGCGCa -3'
miRNA:   3'- -CCGaCCGGUCGUGGa---CCa-------------GGUCGCGa -5'
23037 3' -61.8 NC_005178.1 + 25364 0.66 0.256573
Target:  5'- aGGCUGGCCGGgAgCU-GUCCGGUu-- -3'
miRNA:   3'- -CCGACCGGUCgUgGAcCAGGUCGcga -5'
23037 3' -61.8 NC_005178.1 + 23507 0.66 0.276918
Target:  5'- gGGCgcccUGGCCGucGC-CCUGGgcgUCGGCGUa -3'
miRNA:   3'- -CCG----ACCGGU--CGuGGACCa--GGUCGCGa -5'
23037 3' -61.8 NC_005178.1 + 22945 0.69 0.154849
Target:  5'- cGCUGGcCCAGUGCCUGuGgugCUgaAGCGCg -3'
miRNA:   3'- cCGACC-GGUCGUGGAC-Ca--GG--UCGCGa -5'
23037 3' -61.8 NC_005178.1 + 20835 0.69 0.159142
Target:  5'- aGCUGGUCaaccgagguaGGCACCgaGGUacgcCCGGCGCUc -3'
miRNA:   3'- cCGACCGG----------UCGUGGa-CCA----GGUCGCGA- -5'
23037 3' -61.8 NC_005178.1 + 20467 0.68 0.18722
Target:  5'- aGCuUGGCCAGguugguCGCCUGGgcgUCCAGgGCc -3'
miRNA:   3'- cCG-ACCGGUC------GUGGACC---AGGUCgCGa -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.