miRNA display CGI


Results 1 - 19 of 19 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
6232 5' -54.3 NC_001844.1 + 143143 0.66 0.947628
Target:  5'- -gGUCugGguggcccGGGAGCagGUUGUcGGCCCCc -3'
miRNA:   3'- agUAGugC-------CCCUCG--CAACGaUUGGGG- -5'
6232 5' -54.3 NC_001844.1 + 13087 0.66 0.943624
Target:  5'- aUCGUaacCGauGGGGGCGaccGCUGcaGCCCCa -3'
miRNA:   3'- -AGUA---GUgcCCCUCGCaa-CGAU--UGGGG- -5'
6232 5' -54.3 NC_001844.1 + 143966 0.66 0.943624
Target:  5'- aCGUCGgGGGGcccAGUccaGUUGCcAGCCCa -3'
miRNA:   3'- aGUAGUgCCCC---UCG---CAACGaUUGGGg -5'
6232 5' -54.3 NC_001844.1 + 121403 0.66 0.938947
Target:  5'- gCGggGCGGGGAaucGCaugUGCcaUAGCCCCg -3'
miRNA:   3'- aGUagUGCCCCU---CGca-ACG--AUUGGGG- -5'
6232 5' -54.3 NC_001844.1 + 143269 0.66 0.938947
Target:  5'- gUCGUU-CGGGGAgGCGUagggUGCcgguccGCCCCc -3'
miRNA:   3'- -AGUAGuGCCCCU-CGCA----ACGau----UGGGG- -5'
6232 5' -54.3 NC_001844.1 + 114787 0.67 0.923458
Target:  5'- gCAagaGCGGGaAGCGgcGCUccgAGCCCCu -3'
miRNA:   3'- aGUag-UGCCCcUCGCaaCGA---UUGGGG- -5'
6232 5' -54.3 NC_001844.1 + 142087 0.67 0.917808
Target:  5'- cCAUgucCGCGGGGAGCG-UGUaugAACUUCu -3'
miRNA:   3'- aGUA---GUGCCCCUCGCaACGa--UUGGGG- -5'
6232 5' -54.3 NC_001844.1 + 143738 0.67 0.917808
Target:  5'- uUCAUCcaggcagcccgGCGGcGGAGCGguccGCUGGCagCCa -3'
miRNA:   3'- -AGUAG-----------UGCC-CCUCGCaa--CGAUUGg-GG- -5'
6232 5' -54.3 NC_001844.1 + 136074 0.67 0.911914
Target:  5'- aCAUgGCGGGGGccgaucCGgaGCUAuuuCCCCg -3'
miRNA:   3'- aGUAgUGCCCCUc-----GCaaCGAUu--GGGG- -5'
6232 5' -54.3 NC_001844.1 + 60452 0.67 0.911914
Target:  5'- cUCGUCACuGGGGGUGUUuaccugaggGUUAcaGCCCa -3'
miRNA:   3'- -AGUAGUGcCCCUCGCAA---------CGAU--UGGGg -5'
6232 5' -54.3 NC_001844.1 + 120366 0.68 0.885948
Target:  5'- gCGcCACGGcGGAGCGcagaacGCUcccGGCCCCc -3'
miRNA:   3'- aGUaGUGCC-CCUCGCaa----CGA---UUGGGG- -5'
6232 5' -54.3 NC_001844.1 + 114218 0.69 0.864059
Target:  5'- aCAUCAaGGGGgggcucucGGCGcUGCUGgcgGCCCUg -3'
miRNA:   3'- aGUAGUgCCCC--------UCGCaACGAU---UGGGG- -5'
6232 5' -54.3 NC_001844.1 + 122100 0.69 0.864059
Target:  5'- ---gCAgGGGGAGCGggaGCUuucGGCCUCg -3'
miRNA:   3'- aguaGUgCCCCUCGCaa-CGA---UUGGGG- -5'
6232 5' -54.3 NC_001844.1 + 41772 0.7 0.814714
Target:  5'- gUCAUaGCGGGGcGCa-UGgUAGCCCCa -3'
miRNA:   3'- -AGUAgUGCCCCuCGcaACgAUUGGGG- -5'
6232 5' -54.3 NC_001844.1 + 16548 0.7 0.814714
Target:  5'- --uUCugGGGGaAGCGguuggagaaGCgUAACCCCg -3'
miRNA:   3'- aguAGugCCCC-UCGCaa-------CG-AUUGGGG- -5'
6232 5' -54.3 NC_001844.1 + 45132 0.7 0.778334
Target:  5'- aUCGUCcaggaGGGGAGUGUuuucUGgUAcaGCCCCa -3'
miRNA:   3'- -AGUAGug---CCCCUCGCA----ACgAU--UGGGG- -5'
6232 5' -54.3 NC_001844.1 + 137941 0.71 0.768882
Target:  5'- gUCAcaGCGGGGGGCGccGUccaccAGCCCCa -3'
miRNA:   3'- -AGUagUGCCCCUCGCaaCGa----UUGGGG- -5'
6232 5' -54.3 NC_001844.1 + 115527 0.75 0.545836
Target:  5'- ---cCGCGGcGGAGCGUccGCUGuCCCCg -3'
miRNA:   3'- aguaGUGCC-CCUCGCAa-CGAUuGGGG- -5'
6232 5' -54.3 NC_001844.1 + 115990 1.12 0.002774
Target:  5'- uUCAUCACGGGGAGCGUUGCUAACCCCc -3'
miRNA:   3'- -AGUAGUGCCCCUCGCAACGAUUGGGG- -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.