miRNA display CGI


Results 1 - 20 of 29 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
13193 3' -58.4 NC_003401.1 + 120211 0.66 0.830269
Target:  5'- uGCGCGGCGGaggauuuuucCGugGCGGauuuacUGAaaCAGGa -3'
miRNA:   3'- -CGCGCUGCC----------GCugCGCC------ACUagGUCU- -5'
13193 3' -58.4 NC_003401.1 + 122563 0.66 0.830269
Target:  5'- uGCGCGGCGGaacaGAcuuucCGCGGUucgCCGGc -3'
miRNA:   3'- -CGCGCUGCCg---CU-----GCGCCAcuaGGUCu -5'
13193 3' -58.4 NC_003401.1 + 18445 0.66 0.830269
Target:  5'- gGCGCGGCGGCGGCcacaagGGUGucucuuuuuauaGUCguGGg -3'
miRNA:   3'- -CGCGCUGCCGCUGcg----CCAC------------UAGguCU- -5'
13193 3' -58.4 NC_003401.1 + 37352 0.66 0.830269
Target:  5'- -gGCG--GGCGGCGCGGUucagggcucccaGAUCCAa- -3'
miRNA:   3'- cgCGCugCCGCUGCGCCA------------CUAGGUcu -5'
13193 3' -58.4 NC_003401.1 + 132498 0.66 0.821979
Target:  5'- cCGCGGgcccgggcCGGCGGgGCGGaGggCCGGGa -3'
miRNA:   3'- cGCGCU--------GCCGCUgCGCCaCuaGGUCU- -5'
13193 3' -58.4 NC_003401.1 + 122114 0.66 0.821979
Target:  5'- gGCGCGGCaGGgGGCGUGGcacggccGcgCCAGc -3'
miRNA:   3'- -CGCGCUG-CCgCUGCGCCa------CuaGGUCu -5'
13193 3' -58.4 NC_003401.1 + 121433 0.66 0.813524
Target:  5'- -gGCGuuGGCGAuUGgGGUGGUCCcGGu -3'
miRNA:   3'- cgCGCugCCGCU-GCgCCACUAGGuCU- -5'
13193 3' -58.4 NC_003401.1 + 117894 0.66 0.804912
Target:  5'- gGCGCGGgGGUucGGCgGCGGUGGcaccgcgCCAGc -3'
miRNA:   3'- -CGCGCUgCCG--CUG-CGCCACUa------GGUCu -5'
13193 3' -58.4 NC_003401.1 + 107785 0.66 0.804912
Target:  5'- cGCGCc-CGGUGGCGCGGac--CCGGGa -3'
miRNA:   3'- -CGCGcuGCCGCUGCGCCacuaGGUCU- -5'
13193 3' -58.4 NC_003401.1 + 15811 0.66 0.804042
Target:  5'- gGCGCGACGGUGAucaaccccauucCGgGGUuuuacgacgagccGGUCCuGGu -3'
miRNA:   3'- -CGCGCUGCCGCU------------GCgCCA-------------CUAGGuCU- -5'
13193 3' -58.4 NC_003401.1 + 100978 0.66 0.796149
Target:  5'- gGCGCGuacACGaCGAUGCgauauccgccgaGGUGAUCUGGAu -3'
miRNA:   3'- -CGCGC---UGCcGCUGCG------------CCACUAGGUCU- -5'
13193 3' -58.4 NC_003401.1 + 47484 0.66 0.787244
Target:  5'- -aGCGACGGCGAa--GGUGG--CAGAg -3'
miRNA:   3'- cgCGCUGCCGCUgcgCCACUagGUCU- -5'
13193 3' -58.4 NC_003401.1 + 20551 0.67 0.740878
Target:  5'- cGCG-GGCGGCGGC-CGGUcaacgCCAGGu -3'
miRNA:   3'- -CGCgCUGCCGCUGcGCCAcua--GGUCU- -5'
13193 3' -58.4 NC_003401.1 + 17490 0.68 0.702095
Target:  5'- gGCgGCGACGcggacGCGGCGCGcGUGGcccCCGGGu -3'
miRNA:   3'- -CG-CGCUGC-----CGCUGCGC-CACUa--GGUCU- -5'
13193 3' -58.4 NC_003401.1 + 71973 0.68 0.692236
Target:  5'- aCGCGugGG-GGCGCGcGU--UCCAGGg -3'
miRNA:   3'- cGCGCugCCgCUGCGC-CAcuAGGUCU- -5'
13193 3' -58.4 NC_003401.1 + 27687 0.68 0.682329
Target:  5'- uGCGUGGCGagacCGGCGUGGUGGcucgCCGGc -3'
miRNA:   3'- -CGCGCUGCc---GCUGCGCCACUa---GGUCu -5'
13193 3' -58.4 NC_003401.1 + 132380 0.69 0.652404
Target:  5'- gGCcCGGCGGCGGCGCcGGccgGGcgccUCCGGGc -3'
miRNA:   3'- -CGcGCUGCCGCUGCG-CCa--CU----AGGUCU- -5'
13193 3' -58.4 NC_003401.1 + 18080 0.69 0.652404
Target:  5'- cCGCGACGGgGACaGCGuGUGAa-CGGAc -3'
miRNA:   3'- cGCGCUGCCgCUG-CGC-CACUagGUCU- -5'
13193 3' -58.4 NC_003401.1 + 121496 0.69 0.642387
Target:  5'- -gGCGuuGGCGAuUGUGGcGGUCCAGGu -3'
miRNA:   3'- cgCGCugCCGCU-GCGCCaCUAGGUCU- -5'
13193 3' -58.4 NC_003401.1 + 132535 0.7 0.58238
Target:  5'- gGCcCGGCGcGCGGCGCGGggcggCCGGGg -3'
miRNA:   3'- -CGcGCUGC-CGCUGCGCCacua-GGUCU- -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.