miRNA display CGI


Results 1 - 20 of 46 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
28341 5' -55.7 NC_005946.1 + 8129 1.13 0.001378
Target:  5'- cCCAGGACCCUGUCCACGUCAGAGUCCc -3'
miRNA:   3'- -GGUCCUGGGACAGGUGCAGUCUCAGG- -5'
28341 5' -55.7 NC_005946.1 + 102295 0.77 0.295559
Target:  5'- gCAGGGCCCcGcacgCCaggGCGUCAGAGUCUa -3'
miRNA:   3'- gGUCCUGGGaCa---GG---UGCAGUCUCAGG- -5'
28341 5' -55.7 NC_005946.1 + 56066 0.75 0.396427
Target:  5'- uCCAGGgugagggugGCCCUGUCUACGUUcaggagggaagaGGGGUCg -3'
miRNA:   3'- -GGUCC---------UGGGACAGGUGCAG------------UCUCAGg -5'
28341 5' -55.7 NC_005946.1 + 35992 0.75 0.396427
Target:  5'- uCCAGGGCCUcggcGUCCAUGUCAG-G-CCu -3'
miRNA:   3'- -GGUCCUGGGa---CAGGUGCAGUCuCaGG- -5'
28341 5' -55.7 NC_005946.1 + 41410 0.74 0.465749
Target:  5'- cCCGGcGGaccguccucuccguCCCUGcCCcCGUCAGGGUCCg -3'
miRNA:   3'- -GGUC-CU--------------GGGACaGGuGCAGUCUCAGG- -5'
28341 5' -55.7 NC_005946.1 + 49433 0.73 0.507089
Target:  5'- uCCAGGGCCCUGgagGgGaCGGGGUCCu -3'
miRNA:   3'- -GGUCCUGGGACaggUgCaGUCUCAGG- -5'
28341 5' -55.7 NC_005946.1 + 20906 0.73 0.51693
Target:  5'- cCCAGGagGCCCUGUCgGCcUCAGAcGcCCu -3'
miRNA:   3'- -GGUCC--UGGGACAGgUGcAGUCU-CaGG- -5'
28341 5' -55.7 NC_005946.1 + 23725 0.72 0.536832
Target:  5'- -gAGGACCCUGUCCAgGcUAaAGUCUg -3'
miRNA:   3'- ggUCCUGGGACAGGUgCaGUcUCAGG- -5'
28341 5' -55.7 NC_005946.1 + 16292 0.72 0.577368
Target:  5'- aCUAcGACUCUGUCCACGU---AGUCCa -3'
miRNA:   3'- -GGUcCUGGGACAGGUGCAgucUCAGG- -5'
28341 5' -55.7 NC_005946.1 + 75350 0.72 0.577368
Target:  5'- cCCGguGGACCCguaccCCGCGUCaccccugucgguAGAGUCCa -3'
miRNA:   3'- -GGU--CCUGGGaca--GGUGCAG------------UCUCAGG- -5'
28341 5' -55.7 NC_005946.1 + 86799 0.71 0.618536
Target:  5'- gCCGGGACCCUGcUCCugccccugaugACGUCcaccucccuGUCCg -3'
miRNA:   3'- -GGUCCUGGGAC-AGG-----------UGCAGucu------CAGG- -5'
28341 5' -55.7 NC_005946.1 + 48692 0.71 0.628873
Target:  5'- aCCuGu-CCCaGUCCACGUCAGGcUCCa -3'
miRNA:   3'- -GGuCcuGGGaCAGGUGCAGUCUcAGG- -5'
28341 5' -55.7 NC_005946.1 + 75061 0.7 0.649547
Target:  5'- aCCAGGGCCCUG-CCAaaggaGGGGaCCa -3'
miRNA:   3'- -GGUCCUGGGACaGGUgcag-UCUCaGG- -5'
28341 5' -55.7 NC_005946.1 + 102092 0.7 0.659867
Target:  5'- gUCAGGACCUgcaCCGucUCGGGGUCCg -3'
miRNA:   3'- -GGUCCUGGGacaGGUgcAGUCUCAGG- -5'
28341 5' -55.7 NC_005946.1 + 88148 0.7 0.670164
Target:  5'- cUCAGG-CCCUGUCCAgGguggUGGGGaCCa -3'
miRNA:   3'- -GGUCCuGGGACAGGUgCa---GUCUCaGG- -5'
28341 5' -55.7 NC_005946.1 + 103098 0.7 0.676328
Target:  5'- gCCGGGACCCaggggagagaaggGUCCAa---GGGGUCCc -3'
miRNA:   3'- -GGUCCUGGGa------------CAGGUgcagUCUCAGG- -5'
28341 5' -55.7 NC_005946.1 + 57903 0.7 0.690656
Target:  5'- gCCAGGGCCCUGUuggCCGgGggGGAGagcgCCc -3'
miRNA:   3'- -GGUCCUGGGACA---GGUgCagUCUCa---GG- -5'
28341 5' -55.7 NC_005946.1 + 9595 0.69 0.730966
Target:  5'- uCCAGGAUCUUGgagcacaCCGCGUCGGccaCCa -3'
miRNA:   3'- -GGUCCUGGGACa------GGUGCAGUCucaGG- -5'
28341 5' -55.7 NC_005946.1 + 4351 0.69 0.730966
Target:  5'- -gAGGACa-UGUCUACGUUGGAGggCCa -3'
miRNA:   3'- ggUCCUGggACAGGUGCAGUCUCa-GG- -5'
28341 5' -55.7 NC_005946.1 + 26324 0.69 0.740849
Target:  5'- gCAGu-CCUUGUCCaccACGUCAaAGUCCa -3'
miRNA:   3'- gGUCcuGGGACAGG---UGCAGUcUCAGG- -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.