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 + 38861 1.04 0.000797
Target:  5'- gACGGCGCGCGGCGACAGCAUCAUGUUc -3'
miRNA:   3'- -UGCCGCGCGCCGCUGUCGUAGUACAA- -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 + 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 + 39014 0.67 0.405662
Target:  5'- uACGuCGCGgaggaGGCGACGGCAUgCGUGg- -3'
miRNA:   3'- -UGCcGCGCg----CCGCUGUCGUA-GUACaa -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 + 32143 0.68 0.360983
Target:  5'- gGCGGCuggugGCGCGGUGgguuACGGCGUCGg--- -3'
miRNA:   3'- -UGCCG-----CGCGCCGC----UGUCGUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 37804 0.68 0.352468
Target:  5'- uCGGCGCGCagugaGGUGuCuauGCGUCGUGUc -3'
miRNA:   3'- uGCCGCGCG-----CCGCuGu--CGUAGUACAa -5'
11601 3' -58.3 NC_003085.1 + 34509 0.8 0.054928
Target:  5'- cACGgacGCGUGCGGCGACAGCGUCAg--- -3'
miRNA:   3'- -UGC---CGCGCGCCGCUGUCGUAGUacaa -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 + 34724 0.74 0.141062
Target:  5'- gGCGGCGCGUGGCauaccGAUGGCAUCGc--- -3'
miRNA:   3'- -UGCCGCGCGCCG-----CUGUCGUAGUacaa -5'
11601 3' -58.3 NC_003085.1 + 39665 0.71 0.223716
Target:  5'- aGCGGCGCGCGcGUGAgCAGCAgCAg--- -3'
miRNA:   3'- -UGCCGCGCGC-CGCU-GUCGUaGUacaa -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 + 42748 0.69 0.296903
Target:  5'- uGCGG-GCGCGGUGgACGGCAUCc---- -3'
miRNA:   3'- -UGCCgCGCGCCGC-UGUCGUAGuacaa -5'
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 + 39136 0.66 0.504589
Target:  5'- -aGGCGaCGUGGCGGgGGCcgCAUc-- -3'
miRNA:   3'- ugCCGC-GCGCCGCUgUCGuaGUAcaa -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' 
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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.