miRNA display CGI


Results 1 - 20 of 170 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
12983 3' -63.2 NC_003387.1 + 44454 1.1 0.000132
Target:  5'- gAGGCGCUGCGCGAGGCGCUGCACGCCc -3'
miRNA:   3'- -UCCGCGACGCGCUCCGCGACGUGCGG- -5'
12983 3' -63.2 NC_003387.1 + 14938 0.84 0.014958
Target:  5'- cGGGUGCUGCGCccAGGCGCgcuugaGCACGCCu -3'
miRNA:   3'- -UCCGCGACGCGc-UCCGCGa-----CGUGCGG- -5'
12983 3' -63.2 NC_003387.1 + 48955 0.82 0.019326
Target:  5'- gAGGCGCUGCGUGAgcuGGCGaucgUGCACGCg -3'
miRNA:   3'- -UCCGCGACGCGCU---CCGCg---ACGUGCGg -5'
12983 3' -63.2 NC_003387.1 + 32225 0.8 0.03042
Target:  5'- -cGCGCUGCGCGAGcGCGacgaGCugGCCg -3'
miRNA:   3'- ucCGCGACGCGCUC-CGCga--CGugCGG- -5'
12983 3' -63.2 NC_003387.1 + 3618 0.78 0.043144
Target:  5'- cGGGUGC-GCGuCGAGGUGCucgacuucguacgccUGCGCGCCg -3'
miRNA:   3'- -UCCGCGaCGC-GCUCCGCG---------------ACGUGCGG- -5'
12983 3' -63.2 NC_003387.1 + 51729 0.77 0.047728
Target:  5'- -cGCGCUuCGCGAGGCcCUGCAUGCUg -3'
miRNA:   3'- ucCGCGAcGCGCUCCGcGACGUGCGG- -5'
12983 3' -63.2 NC_003387.1 + 1398 0.77 0.051908
Target:  5'- gGGGUcgcgcucgaaGUUGUGCGAGGCGCcGC-CGCCg -3'
miRNA:   3'- -UCCG----------CGACGCGCUCCGCGaCGuGCGG- -5'
12983 3' -63.2 NC_003387.1 + 52460 0.76 0.058037
Target:  5'- cGGCGCgGCGCagccaGGGCaCUGCACGCUg -3'
miRNA:   3'- uCCGCGaCGCGc----UCCGcGACGUGCGG- -5'
12983 3' -63.2 NC_003387.1 + 34025 0.75 0.066322
Target:  5'- uGGCGCUGCGCGAcccgcaccuggucGGCGUgugggGCggccuaaGCGCCc -3'
miRNA:   3'- uCCGCGACGCGCU-------------CCGCGa----CG-------UGCGG- -5'
12983 3' -63.2 NC_003387.1 + 12440 0.75 0.07049
Target:  5'- aGGGCGCUGC-CGAGGUucGCUGgcggcggcCugGCCg -3'
miRNA:   3'- -UCCGCGACGcGCUCCG--CGAC--------GugCGG- -5'
12983 3' -63.2 NC_003387.1 + 20168 0.75 0.07049
Target:  5'- aGGGCGUcgaggGCGCGGuugauGCGCUGCuGCGCCu -3'
miRNA:   3'- -UCCGCGa----CGCGCUc----CGCGACG-UGCGG- -5'
12983 3' -63.2 NC_003387.1 + 5038 0.75 0.072467
Target:  5'- cGGCGCUGCGCGAGuCGgUGCucaGCg -3'
miRNA:   3'- uCCGCGACGCGCUCcGCgACGug-CGg -5'
12983 3' -63.2 NC_003387.1 + 39692 0.75 0.073273
Target:  5'- cGGCGUUGCGCagcgacgugcGGGCGCUGUcgaccuugcccgacgACGCCu -3'
miRNA:   3'- uCCGCGACGCGc---------UCCGCGACG---------------UGCGG- -5'
12983 3' -63.2 NC_003387.1 + 3850 0.74 0.077431
Target:  5'- uAGGCggcgccgacgauccgGCUGCGCaccaGGGCG-UGCACGCCg -3'
miRNA:   3'- -UCCG---------------CGACGCGc---UCCGCgACGUGCGG- -5'
12983 3' -63.2 NC_003387.1 + 2258 0.74 0.085257
Target:  5'- aAGGgGCUGCGUG-GGCGCcccgaggUGCccgaggGCGCCa -3'
miRNA:   3'- -UCCgCGACGCGCuCCGCG-------ACG------UGCGG- -5'
12983 3' -63.2 NC_003387.1 + 19272 0.74 0.085491
Target:  5'- cGGcCGCcuUGCGCGAGGUGgUgGCGCGCa -3'
miRNA:   3'- uCC-GCG--ACGCGCUCCGCgA-CGUGCGg -5'
12983 3' -63.2 NC_003387.1 + 4566 0.74 0.085491
Target:  5'- -uGCGCgaccGCGCGGGccucgguggcGCGCUGCGCGCg -3'
miRNA:   3'- ucCGCGa---CGCGCUC----------CGCGACGUGCGg -5'
12983 3' -63.2 NC_003387.1 + 11366 0.74 0.086435
Target:  5'- cGGCGUcggccuugcauuucGCGCGGuGGCGCUucacGCACGCCu -3'
miRNA:   3'- uCCGCGa-------------CGCGCU-CCGCGA----CGUGCGG- -5'
12983 3' -63.2 NC_003387.1 + 45851 0.74 0.087868
Target:  5'- cGGagaucCUGCGCGAGcugcuGCgGCUGCGCGCCg -3'
miRNA:   3'- uCCgc---GACGCGCUC-----CG-CGACGUGCGG- -5'
12983 3' -63.2 NC_003387.1 + 33417 0.73 0.090309
Target:  5'- gAGGcCGUUGUGCGGcugugccuGCuGCUGCGCGCCa -3'
miRNA:   3'- -UCC-GCGACGCGCUc-------CG-CGACGUGCGG- -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.