miRNA display CGI


Results 1 - 20 of 35 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
11601 3' -58.3 NC_003085.1 + 2789 0.72 0.206609
Target:  5'- gGCGGCGCuccagGCGGCGGCgaagcgccucGGCAUCAcUGg- -3'
miRNA:   3'- -UGCCGCG-----CGCCGCUG----------UCGUAGU-ACaa -5'
11601 3' -58.3 NC_003085.1 + 8544 0.71 0.229681
Target:  5'- uCGGCGCGCGGCGAgcucgucaCGGCAggUCuUGa- -3'
miRNA:   3'- uGCCGCGCGCCGCU--------GUCGU--AGuACaa -5'
11601 3' -58.3 NC_003085.1 + 8800 0.7 0.282329
Target:  5'- gGCGGCuccgcgagguuGCGCGGCGcagcCAGCGUCAg--- -3'
miRNA:   3'- -UGCCG-----------CGCGCCGCu---GUCGUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 9511 0.72 0.212182
Target:  5'- gGCGGCGCGCGGCG--GGuCAUCGg--- -3'
miRNA:   3'- -UGCCGCGCGCCGCugUC-GUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 12346 0.71 0.254892
Target:  5'- cCGGCGUGaCGGUGcCAGCAcUCGUGa- -3'
miRNA:   3'- uGCCGCGC-GCCGCuGUCGU-AGUACaa -5'
11601 3' -58.3 NC_003085.1 + 16056 0.66 0.473713
Target:  5'- -gGGaCGUGCGccaCGACgGGCGUCAUGUUg -3'
miRNA:   3'- ugCC-GCGCGCc--GCUG-UCGUAGUACAA- -5'
11601 3' -58.3 NC_003085.1 + 19059 0.75 0.122673
Target:  5'- cGCGGCGCGCGGCGG-AGCAggcgCcgGg- -3'
miRNA:   3'- -UGCCGCGCGCCGCUgUCGUa---GuaCaa -5'
11601 3' -58.3 NC_003085.1 + 19701 0.71 0.229681
Target:  5'- -aGGCGCGCGGCGGCAucuGCAccuUCGa--- -3'
miRNA:   3'- ugCCGCGCGCCGCUGU---CGU---AGUacaa -5'
11601 3' -58.3 NC_003085.1 + 21670 0.67 0.405662
Target:  5'- aGCGaCGCGCGG-GugAGCAUCAg--- -3'
miRNA:   3'- -UGCcGCGCGCCgCugUCGUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 22899 0.67 0.405662
Target:  5'- cCGGUGCGuCGGCGuuCGGCGUCu---- -3'
miRNA:   3'- uGCCGCGC-GCCGCu-GUCGUAGuacaa -5'
11601 3' -58.3 NC_003085.1 + 24543 0.67 0.404735
Target:  5'- cGCGGUgcguGCGCGGCG-CGGacaugccugaccuCAUCAUGUc -3'
miRNA:   3'- -UGCCG----CGCGCCGCuGUC-------------GUAGUACAa -5'
11601 3' -58.3 NC_003085.1 + 26129 0.66 0.4727
Target:  5'- gGCGGCGCuuggccggccagaGCGGCGucaAGCAUCu---- -3'
miRNA:   3'- -UGCCGCG-------------CGCCGCug-UCGUAGuacaa -5'
11601 3' -58.3 NC_003085.1 + 26712 0.66 0.463632
Target:  5'- aGCGcGCGCaggGCGGUGACGGCGcggcgCcgGUg -3'
miRNA:   3'- -UGC-CGCG---CGCCGCUGUCGUa----GuaCAa -5'
11601 3' -58.3 NC_003085.1 + 29016 0.66 0.463632
Target:  5'- aGCGGCuCGCGcGCGGCGGaCAUCu---- -3'
miRNA:   3'- -UGCCGcGCGC-CGCUGUC-GUAGuacaa -5'
11601 3' -58.3 NC_003085.1 + 29232 0.66 0.498342
Target:  5'- -gGGCGaagGUGGCGACGuaccggaaggcguccGCGUCGUGg- -3'
miRNA:   3'- ugCCGCg--CGCCGCUGU---------------CGUAGUACaa -5'
11601 3' -58.3 NC_003085.1 + 29424 0.67 0.405662
Target:  5'- -gGGCGCG-GGCGGCGGCA--AUGc- -3'
miRNA:   3'- ugCCGCGCgCCGCUGUCGUagUACaa -5'
11601 3' -58.3 NC_003085.1 + 30531 0.66 0.463632
Target:  5'- gGCGGCGCGUGGagcACAGCAggCGauUGg- -3'
miRNA:   3'- -UGCCGCGCGCCgc-UGUCGUa-GU--ACaa -5'
11601 3' -58.3 NC_003085.1 + 32143 0.68 0.360983
Target:  5'- gGCGGCuggugGCGCGGUGgguuACGGCGUCGg--- -3'
miRNA:   3'- -UGCCG-----CGCGCCGC----UGUCGUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 33280 0.66 0.46263
Target:  5'- cACGGCucaccucgaaccaGCGCGGCcaccACGGCGUCAcgGUc -3'
miRNA:   3'- -UGCCG-------------CGCGCCGc---UGUCGUAGUa-CAa -5'
11601 3' -58.3 NC_003085.1 + 33562 0.67 0.434086
Target:  5'- gACGGaccauGCGCGGCGACauguugccgaAGCGguggCAUGa- -3'
miRNA:   3'- -UGCCg----CGCGCCGCUG----------UCGUa---GUACaa -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.