miRNA display CGI


Results 1 - 20 of 34 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
20405 3' -54.8 NC_004688.1 + 26038 0.66 0.908058
Target:  5'- gGCUcCGGgGAggCCCgUGGGcauaccgguGCUGAGCg -3'
miRNA:   3'- -CGGuGCCgCUuaGGG-AUCC---------CGAUUCG- -5'
20405 3' -54.8 NC_004688.1 + 26991 0.66 0.903601
Target:  5'- gGCCACGGCGccaguccgccguugaGAUagaagaugaucucCCCgccGGGGCUGGuGUa -3'
miRNA:   3'- -CGGUGCCGC---------------UUA-------------GGGa--UCCCGAUU-CG- -5'
20405 3' -54.8 NC_004688.1 + 48099 0.66 0.901653
Target:  5'- gGCCGCGGUaGAGgcggccaaCCCUAacuGGCggGAGCa -3'
miRNA:   3'- -CGGUGCCG-CUUa-------GGGAUc--CCGa-UUCG- -5'
20405 3' -54.8 NC_004688.1 + 60713 0.66 0.895002
Target:  5'- uGCCGCuguaGGCGAcgguGUCCCagAGGuGCcucuGGCg -3'
miRNA:   3'- -CGGUG----CCGCU----UAGGGa-UCC-CGau--UCG- -5'
20405 3' -54.8 NC_004688.1 + 67294 0.66 0.895002
Target:  5'- --gACGGUGAacucgaAUUCCgAGaGGCUGAGCu -3'
miRNA:   3'- cggUGCCGCU------UAGGGaUC-CCGAUUCG- -5'
20405 3' -54.8 NC_004688.1 + 78880 0.66 0.890894
Target:  5'- aGCCACGGgGAGcCCCaggacGGaguccugcagccccaGCUGAGCc -3'
miRNA:   3'- -CGGUGCCgCUUaGGGau---CC---------------CGAUUCG- -5'
20405 3' -54.8 NC_004688.1 + 25675 0.66 0.880249
Target:  5'- cGCCACGaucgccuGCGcuUCCUgcGGGCUAuacccGCg -3'
miRNA:   3'- -CGGUGC-------CGCuuAGGGauCCCGAUu----CG- -5'
20405 3' -54.8 NC_004688.1 + 57945 0.66 0.873608
Target:  5'- aCCGCGGCccgGGGgcaCCUcGGGGCUGcuGGCc -3'
miRNA:   3'- cGGUGCCG---CUUag-GGA-UCCCGAU--UCG- -5'
20405 3' -54.8 NC_004688.1 + 52738 0.66 0.872107
Target:  5'- cGCCGCGccgauccGCGAAUgCUgGGGGCcggacuccccgcaUGAGCa -3'
miRNA:   3'- -CGGUGC-------CGCUUAgGGaUCCCG-------------AUUCG- -5'
20405 3' -54.8 NC_004688.1 + 4205 0.67 0.866012
Target:  5'- cGCCGCGGgcgcCGAggCCCUcgguuAGGGCcauuGGUu -3'
miRNA:   3'- -CGGUGCC----GCUuaGGGA-----UCCCGau--UCG- -5'
20405 3' -54.8 NC_004688.1 + 1024 0.67 0.866012
Target:  5'- cGCCcCcGCGAGUCaa-AGGGCUAAGa -3'
miRNA:   3'- -CGGuGcCGCUUAGggaUCCCGAUUCg -5'
20405 3' -54.8 NC_004688.1 + 92952 0.67 0.850158
Target:  5'- gGCCGCGGCGAuUCUgCUucggagucgGGGGCguuacccccAGCu -3'
miRNA:   3'- -CGGUGCCGCUuAGG-GA---------UCCCGau-------UCG- -5'
20405 3' -54.8 NC_004688.1 + 44991 0.67 0.833468
Target:  5'- aGCCACGGCagcauuccGAAccaCCCgguGGGCUcguaugccgGGGCg -3'
miRNA:   3'- -CGGUGCCG--------CUUa--GGGau-CCCGA---------UUCG- -5'
20405 3' -54.8 NC_004688.1 + 70492 0.68 0.816003
Target:  5'- cGCC-CGGUGAuacUCCCacGGGGagGAGCa -3'
miRNA:   3'- -CGGuGCCGCUu--AGGGa-UCCCgaUUCG- -5'
20405 3' -54.8 NC_004688.1 + 42878 0.68 0.807001
Target:  5'- aCCuCGuaGAggCCCUcguagccgGGGGCUGGGCg -3'
miRNA:   3'- cGGuGCcgCUuaGGGA--------UCCCGAUUCG- -5'
20405 3' -54.8 NC_004688.1 + 99355 0.68 0.807001
Target:  5'- aGCCG-GGUG-AUCCUggacgAGGGCgGAGCc -3'
miRNA:   3'- -CGGUgCCGCuUAGGGa----UCCCGaUUCG- -5'
20405 3' -54.8 NC_004688.1 + 97903 0.68 0.797832
Target:  5'- cGCCcCGcGCGGGcCUCUcGGcGGCUAGGCg -3'
miRNA:   3'- -CGGuGC-CGCUUaGGGA-UC-CCGAUUCG- -5'
20405 3' -54.8 NC_004688.1 + 86576 0.69 0.76941
Target:  5'- aGCCACGGCcAGcUCCauuguuaUGGGGCgguAGUa -3'
miRNA:   3'- -CGGUGCCGcUU-AGGg------AUCCCGau-UCG- -5'
20405 3' -54.8 NC_004688.1 + 93300 0.69 0.768441
Target:  5'- cGCCAUGGCcggGAGUCCaugacccUUGGGGgUGAuGCg -3'
miRNA:   3'- -CGGUGCCG---CUUAGG-------GAUCCCgAUU-CG- -5'
20405 3' -54.8 NC_004688.1 + 61831 0.69 0.749798
Target:  5'- gGCUGCGGCGGuaguUgCCgcGGGGCUcgucgGAGCu -3'
miRNA:   3'- -CGGUGCCGCUu---AgGGa-UCCCGA-----UUCG- -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.