miRNA display CGI


Results 1 - 20 of 36 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
5513 5' -53.3 NC_001798.1 + 2300 0.66 0.961896
Target:  5'- gGCCAgcgCGcGCGGGUCGaaCAUGagGGCc -3'
miRNA:   3'- aCGGUa--GU-CGUCCAGCacGUAUa-CCG- -5'
5513 5' -53.3 NC_001798.1 + 2517 0.68 0.894817
Target:  5'- gGCCGcggCGGCGGcGUCG-GCGg--GGCg -3'
miRNA:   3'- aCGGUa--GUCGUC-CAGCaCGUauaCCG- -5'
5513 5' -53.3 NC_001798.1 + 2949 0.66 0.95014
Target:  5'- aGCCAggcgcgcaGGCGGGgcgCGUcgGCGUGcGGCg -3'
miRNA:   3'- aCGGUag------UCGUCCa--GCA--CGUAUaCCG- -5'
5513 5' -53.3 NC_001798.1 + 4196 0.7 0.83322
Target:  5'- cGCCcgCGGCGuGGUC-UGCGgcgcUGGCg -3'
miRNA:   3'- aCGGuaGUCGU-CCAGcACGUau--ACCG- -5'
5513 5' -53.3 NC_001798.1 + 9169 0.67 0.936184
Target:  5'- cGCCGgggggcagggucUCuGGCGGGUccccgCGUGCGUccgcgAUGGCa -3'
miRNA:   3'- aCGGU------------AG-UCGUCCA-----GCACGUA-----UACCG- -5'
5513 5' -53.3 NC_001798.1 + 12025 0.69 0.865794
Target:  5'- cGCCA-CGGCGGGgcggCGgggGCAUGcGGUc -3'
miRNA:   3'- aCGGUaGUCGUCCa---GCa--CGUAUaCCG- -5'
5513 5' -53.3 NC_001798.1 + 13608 0.66 0.958215
Target:  5'- gGCCAUCuuaAGCgagGGGUCugcuaagGCGUAuuUGGCg -3'
miRNA:   3'- aCGGUAG---UCG---UCCAGca-----CGUAU--ACCG- -5'
5513 5' -53.3 NC_001798.1 + 14041 0.66 0.958215
Target:  5'- aUGCC--CGGCAcGGg---GCGUGUGGCg -3'
miRNA:   3'- -ACGGuaGUCGU-CCagcaCGUAUACCG- -5'
5513 5' -53.3 NC_001798.1 + 16633 0.66 0.958215
Target:  5'- cGCCGg-GGCAGGUCuUGCcgcccGGCg -3'
miRNA:   3'- aCGGUagUCGUCCAGcACGuaua-CCG- -5'
5513 5' -53.3 NC_001798.1 + 26519 0.68 0.894817
Target:  5'- gGCCG-CGGCGGG-CGgcgGCGUggagGUGGUg -3'
miRNA:   3'- aCGGUaGUCGUCCaGCa--CGUA----UACCG- -5'
5513 5' -53.3 NC_001798.1 + 31291 0.72 0.719262
Target:  5'- cUGCCGUC-GCGGccGUCGUGCcgagaGUGGCc -3'
miRNA:   3'- -ACGGUAGuCGUC--CAGCACGua---UACCG- -5'
5513 5' -53.3 NC_001798.1 + 36279 0.66 0.961896
Target:  5'- gGUgGgCGGCGGGggggggugcCGUGgGUGUGGCg -3'
miRNA:   3'- aCGgUaGUCGUCCa--------GCACgUAUACCG- -5'
5513 5' -53.3 NC_001798.1 + 39460 0.74 0.631681
Target:  5'- cGCCAUCAGCGGaGggggggccuggcgCGUGCcucGUGGCc -3'
miRNA:   3'- aCGGUAGUCGUC-Ca------------GCACGua-UACCG- -5'
5513 5' -53.3 NC_001798.1 + 39997 0.66 0.961896
Target:  5'- cUGCUGUCGGacucgGGGUCGUcGCGgc-GGCc -3'
miRNA:   3'- -ACGGUAGUCg----UCCAGCA-CGUauaCCG- -5'
5513 5' -53.3 NC_001798.1 + 40113 0.69 0.873398
Target:  5'- aGCCAUguuGUAGGUCGccgggGCugggAUGGCg -3'
miRNA:   3'- aCGGUAgu-CGUCCAGCa----CGua--UACCG- -5'
5513 5' -53.3 NC_001798.1 + 40591 0.72 0.709015
Target:  5'- gGCCcgaGGCGGGUCGUGUauuuaauuuGUAUGGg -3'
miRNA:   3'- aCGGuagUCGUCCAGCACG---------UAUACCg -5'
5513 5' -53.3 NC_001798.1 + 52398 0.69 0.849925
Target:  5'- cGCCAcCAGCGGGcugaacgcCGUGCug--GGCg -3'
miRNA:   3'- aCGGUaGUCGUCCa-------GCACGuauaCCG- -5'
5513 5' -53.3 NC_001798.1 + 52578 0.67 0.936184
Target:  5'- gGCCGaCAcGguGGUCGcgUGCGUGgcccUGGCc -3'
miRNA:   3'- aCGGUaGU-CguCCAGC--ACGUAU----ACCG- -5'
5513 5' -53.3 NC_001798.1 + 57393 0.69 0.856376
Target:  5'- aGCCGUaccgggcCAGCGGGUCGUggcgguuGCAUcgcacgGGCu -3'
miRNA:   3'- aCGGUA-------GUCGUCCAGCA-------CGUAua----CCG- -5'
5513 5' -53.3 NC_001798.1 + 65022 0.66 0.958215
Target:  5'- cGCCGUguGCAGGcCcUGCAUgccaaugcccAUGGa -3'
miRNA:   3'- aCGGUAguCGUCCaGcACGUA----------UACCg -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.