miRNA display CGI


Results 1 - 20 of 29 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
26906 5' -63.5 NC_005809.1 + 37870 0.66 0.286973
Target:  5'- gGGCUaCgAGGGCgGCGUcggUGCCuuucucaccGGGGc -3'
miRNA:   3'- gCCGAaGgUCCCGgUGCG---ACGG---------CCCC- -5'
26906 5' -63.5 NC_005809.1 + 25746 0.66 0.280098
Target:  5'- gCGGCagCacgcuGGG-CGCGCUGCUGGGcGg -3'
miRNA:   3'- -GCCGaaGgu---CCCgGUGCGACGGCCC-C- -5'
26906 5' -63.5 NC_005809.1 + 678 0.66 0.280098
Target:  5'- aGGCcgCCuacGGCgGCGCcgGCCGGGc -3'
miRNA:   3'- gCCGaaGGuc-CCGgUGCGa-CGGCCCc -5'
26906 5' -63.5 NC_005809.1 + 14167 0.66 0.273355
Target:  5'- aGGCaUCUAcuGGcGCCGCGCcGCCGGc- -3'
miRNA:   3'- gCCGaAGGU--CC-CGGUGCGaCGGCCcc -5'
26906 5' -63.5 NC_005809.1 + 4611 0.66 0.266743
Target:  5'- aGGUcagCCAGgccaauguuGGcCCGCGCUGCCGcaGGGu -3'
miRNA:   3'- gCCGaa-GGUC---------CC-GGUGCGACGGC--CCC- -5'
26906 5' -63.5 NC_005809.1 + 11584 0.66 0.266743
Target:  5'- -uGCcgcCCAGGGCCGCcgGCUggccGCCGGGc -3'
miRNA:   3'- gcCGaa-GGUCCCGGUG--CGA----CGGCCCc -5'
26906 5' -63.5 NC_005809.1 + 4627 0.66 0.266743
Target:  5'- uCGGCggggaUgCuGGGCCACGCUGCguCGGc- -3'
miRNA:   3'- -GCCGa----AgGuCCCGGUGCGACG--GCCcc -5'
26906 5' -63.5 NC_005809.1 + 11284 0.66 0.260261
Target:  5'- gCGGUcgCCA-GGCUuCGCUGCCacgucGGGGu -3'
miRNA:   3'- -GCCGaaGGUcCCGGuGCGACGG-----CCCC- -5'
26906 5' -63.5 NC_005809.1 + 41034 0.67 0.241585
Target:  5'- uCGGCUUuaCCAaGGCCGaaCUGCUGGGcGg -3'
miRNA:   3'- -GCCGAA--GGUcCCGGUgcGACGGCCC-C- -5'
26906 5' -63.5 NC_005809.1 + 30548 0.67 0.235612
Target:  5'- gGGCaagaccucgCCGGccacGGCCGCGCUGCUGGc- -3'
miRNA:   3'- gCCGaa-------GGUC----CCGGUGCGACGGCCcc -5'
26906 5' -63.5 NC_005809.1 + 1461 0.67 0.218435
Target:  5'- aCGGCgcggUCGGcGGCcucCugGCagGCCGGGGu -3'
miRNA:   3'- -GCCGaa--GGUC-CCG---GugCGa-CGGCCCC- -5'
26906 5' -63.5 NC_005809.1 + 24649 0.68 0.212951
Target:  5'- cCGGCgggCCAGGaugguguuGUCGCGCccGCCGcGGGc -3'
miRNA:   3'- -GCCGaa-GGUCC--------CGGUGCGa-CGGC-CCC- -5'
26906 5' -63.5 NC_005809.1 + 27502 0.68 0.202339
Target:  5'- cCGGCggCCucGGCCgccagcuucucgGCGCgGUCGGGGu -3'
miRNA:   3'- -GCCGaaGGucCCGG------------UGCGaCGGCCCC- -5'
26906 5' -63.5 NC_005809.1 + 24575 0.68 0.202339
Target:  5'- aGGCcggCCAcggucGGGCCguccgGCGUguccuUGCCGGGGu -3'
miRNA:   3'- gCCGaa-GGU-----CCCGG-----UGCG-----ACGGCCCC- -5'
26906 5' -63.5 NC_005809.1 + 4375 0.68 0.192189
Target:  5'- aGGCggaugcgcagCCAGGcGCCGuCGC-GCCGGGc -3'
miRNA:   3'- gCCGaa--------GGUCC-CGGU-GCGaCGGCCCc -5'
26906 5' -63.5 NC_005809.1 + 15125 0.68 0.182488
Target:  5'- uGGCauaccagcgCCAGGGCCuGCgGCcGCCGGGc -3'
miRNA:   3'- gCCGaa-------GGUCCCGG-UG-CGaCGGCCCc -5'
26906 5' -63.5 NC_005809.1 + 41602 0.69 0.177802
Target:  5'- aGGCggCCaAGuGGCUGCaaGCUGCCGuGGGc -3'
miRNA:   3'- gCCGaaGG-UC-CCGGUG--CGACGGC-CCC- -5'
26906 5' -63.5 NC_005809.1 + 7147 0.69 0.162661
Target:  5'- uCGGCUgcggccuggaugaCCAGGGCCggGCGCUuGUcggauuCGGGGg -3'
miRNA:   3'- -GCCGAa------------GGUCCCGG--UGCGA-CG------GCCCC- -5'
26906 5' -63.5 NC_005809.1 + 17033 0.69 0.160112
Target:  5'- uCGGCUa-CGGGG--GCGCUGCCGGcGGc -3'
miRNA:   3'- -GCCGAagGUCCCggUGCGACGGCC-CC- -5'
26906 5' -63.5 NC_005809.1 + 35394 0.69 0.155945
Target:  5'- cCGGCUgcgUCAGGGCgucaGCGCgucggGCCuGGGc -3'
miRNA:   3'- -GCCGAa--GGUCCCGg---UGCGa----CGGcCCC- -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.