miRNA display CGI


Results 1 - 20 of 22 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
21277 3' -56.5 NC_004778.3 + 55910 0.66 0.860423
Target:  5'- gGCCAgCCUGUCCACcaguuuggaaaagccUACCaacaCCGACGa- -3'
miRNA:   3'- -CGGUgGGGCAGGUG---------------AUGG----GGUUGUaa -5'
21277 3' -56.5 NC_004778.3 + 95456 0.66 0.857305
Target:  5'- gGUCACCCCG-C----ACCCCGACGUg -3'
miRNA:   3'- -CGGUGGGGCaGgugaUGGGGUUGUAa -5'
21277 3' -56.5 NC_004778.3 + 106299 0.66 0.849366
Target:  5'- cGCCcgugCCCG-CCGCaGCCCCAGCc-- -3'
miRNA:   3'- -CGGug--GGGCaGGUGaUGGGGUUGuaa -5'
21277 3' -56.5 NC_004778.3 + 108698 0.66 0.849366
Target:  5'- uGCCAgCCCGUCaCAUUGCUCguGgGUa -3'
miRNA:   3'- -CGGUgGGGCAG-GUGAUGGGguUgUAa -5'
21277 3' -56.5 NC_004778.3 + 6995 0.66 0.841224
Target:  5'- cGCCGCCUgCGUCCACacaggggGCgCCCGuCGUg -3'
miRNA:   3'- -CGGUGGG-GCAGGUGa------UG-GGGUuGUAa -5'
21277 3' -56.5 NC_004778.3 + 92998 0.66 0.836245
Target:  5'- aGUCGCCgCCGgCCGCgugaacgcgcagcaGCCCCAACGc- -3'
miRNA:   3'- -CGGUGG-GGCaGGUGa-------------UGGGGUUGUaa -5'
21277 3' -56.5 NC_004778.3 + 100308 0.66 0.832887
Target:  5'- cGCCACgCCUGUCCA--ACCgCGGCcgUa -3'
miRNA:   3'- -CGGUG-GGGCAGGUgaUGGgGUUGuaA- -5'
21277 3' -56.5 NC_004778.3 + 117183 0.67 0.815657
Target:  5'- aGCCACCCCGcaaaugggcuuUCCGCUGaauaCAACGa- -3'
miRNA:   3'- -CGGUGGGGC-----------AGGUGAUggg-GUUGUaa -5'
21277 3' -56.5 NC_004778.3 + 125477 0.67 0.813012
Target:  5'- aGCgCGCCCC-UCCACagcaagcauuuugaUaaGCCCCAACAg- -3'
miRNA:   3'- -CG-GUGGGGcAGGUG--------------A--UGGGGUUGUaa -5'
21277 3' -56.5 NC_004778.3 + 121545 0.67 0.797743
Target:  5'- aGCCGCa-CGUgCCAgCgugACCCCAACAUg -3'
miRNA:   3'- -CGGUGggGCA-GGU-Ga--UGGGGUUGUAa -5'
21277 3' -56.5 NC_004778.3 + 20584 0.67 0.797743
Target:  5'- -gCGCCCCGUgCAgUugCCCAagcGCAg- -3'
miRNA:   3'- cgGUGGGGCAgGUgAugGGGU---UGUaa -5'
21277 3' -56.5 NC_004778.3 + 21727 0.67 0.788551
Target:  5'- -aUACCUCGUCgCGCUACUCCGuaccGCGUa -3'
miRNA:   3'- cgGUGGGGCAG-GUGAUGGGGU----UGUAa -5'
21277 3' -56.5 NC_004778.3 + 27969 0.67 0.769741
Target:  5'- aCCGCCCCGagCGCgacaagcgGCCCguGCAUg -3'
miRNA:   3'- cGGUGGGGCagGUGa-------UGGGguUGUAa -5'
21277 3' -56.5 NC_004778.3 + 103236 0.68 0.750428
Target:  5'- aGCCG-CUCGUCCACUuuaGCCaCCGAUAc- -3'
miRNA:   3'- -CGGUgGGGCAGGUGA---UGG-GGUUGUaa -5'
21277 3' -56.5 NC_004778.3 + 52582 0.69 0.69023
Target:  5'- cGCCACCugCCGcaaCCGCUGCUCCAguuACAa- -3'
miRNA:   3'- -CGGUGG--GGCa--GGUGAUGGGGU---UGUaa -5'
21277 3' -56.5 NC_004778.3 + 81934 0.7 0.648976
Target:  5'- cGCCGCCCCGgcaggCCGCgcACCuaCCGGCGc- -3'
miRNA:   3'- -CGGUGGGGCa----GGUGa-UGG--GGUUGUaa -5'
21277 3' -56.5 NC_004778.3 + 52948 0.7 0.628231
Target:  5'- aGCCGCCuCCG-CCACaGCCCUaucacccguaugGACAUUa -3'
miRNA:   3'- -CGGUGG-GGCaGGUGaUGGGG------------UUGUAA- -5'
21277 3' -56.5 NC_004778.3 + 120969 0.71 0.545983
Target:  5'- cGCgGgCCgCGcCCGCUGCCCCGGCGc- -3'
miRNA:   3'- -CGgUgGG-GCaGGUGAUGGGGUUGUaa -5'
21277 3' -56.5 NC_004778.3 + 64296 0.73 0.439544
Target:  5'- uCCACCCgG-CCGCUACCCUAugAa- -3'
miRNA:   3'- cGGUGGGgCaGGUGAUGGGGUugUaa -5'
21277 3' -56.5 NC_004778.3 + 121401 0.74 0.386679
Target:  5'- aGCgACCCCG-CCGCagACCCCGACu-- -3'
miRNA:   3'- -CGgUGGGGCaGGUGa-UGGGGUUGuaa -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.