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 + 39136 0.66 0.504589
Target:  5'- -aGGCGaCGUGGCGGgGGCcgCAUc-- -3'
miRNA:   3'- ugCCGC-GCGCCGCUgUCGuaGUAcaa -5'
11601 3' -58.3 NC_003085.1 + 47367 0.66 0.504589
Target:  5'- gAUGGCGCcgagguGCGGCGGCuGCGcUCGUc-- -3'
miRNA:   3'- -UGCCGCG------CGCCGCUGuCGU-AGUAcaa -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 + 40979 0.66 0.483903
Target:  5'- gGCGGgccaGCGCcucGGCGGCcuucuggcGCGUCAUGUa -3'
miRNA:   3'- -UGCCg---CGCG---CCGCUGu-------CGUAGUACAa -5'
11601 3' -58.3 NC_003085.1 + 40890 0.66 0.476759
Target:  5'- gACGGCGgcaugccacgguuguUGCGGCGGgAGCggggcaaGUCAUGg- -3'
miRNA:   3'- -UGCCGC---------------GCGCCGCUgUCG-------UAGUACaa -5'
11601 3' -58.3 NC_003085.1 + 42714 0.66 0.473713
Target:  5'- aGCGGCG-GCaccucaGGCGugGGCGUCggGg- -3'
miRNA:   3'- -UGCCGCgCG------CCGCugUCGUAGuaCaa -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 + 26129 0.66 0.4727
Target:  5'- gGCGGCGCuuggccggccagaGCGGCGucaAGCAUCu---- -3'
miRNA:   3'- -UGCCGCG-------------CGCCGCug-UCGUAGuacaa -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 + 30531 0.66 0.463632
Target:  5'- gGCGGCGCGUGGagcACAGCAggCGauUGg- -3'
miRNA:   3'- -UGCCGCGCGCCgc-UGUCGUa-GU--ACaa -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 + 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'
11601 3' -58.3 NC_003085.1 + 39890 0.67 0.424482
Target:  5'- cCGGUGCuCGGCGGCGGCAggcCAa--- -3'
miRNA:   3'- uGCCGCGcGCCGCUGUCGUa--GUacaa -5'
11601 3' -58.3 NC_003085.1 + 39014 0.67 0.405662
Target:  5'- uACGuCGCGgaggaGGCGACGGCAUgCGUGg- -3'
miRNA:   3'- -UGCcGCGCg----CCGCUGUCGUA-GUACaa -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 + 29424 0.67 0.405662
Target:  5'- -gGGCGCG-GGCGGCGGCA--AUGc- -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 + 45425 0.68 0.387375
Target:  5'- cAUGGgGCGCGGUGGCGuCGUCAc--- -3'
miRNA:   3'- -UGCCgCGCGCCGCUGUcGUAGUacaa -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.