miRNA display CGI


Results 1 - 20 of 188 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
11562 3' -64 NC_003085.1 + 23235 1.11 0.000103
Target:  5'- gACGGCCGCCGCGCUUCGCACCGCGCCg -3'
miRNA:   3'- -UGCCGGCGGCGCGAAGCGUGGCGCGG- -5'
11562 3' -64 NC_003085.1 + 47820 0.8 0.027865
Target:  5'- cUGGCCGUCGaauugcgaCGCUacgCGCACCGCGCCc -3'
miRNA:   3'- uGCCGGCGGC--------GCGAa--GCGUGGCGCGG- -5'
11562 3' -64 NC_003085.1 + 20756 0.79 0.029468
Target:  5'- cCGGCUGCUGCccgGCUUCGgGCUGUGCCg -3'
miRNA:   3'- uGCCGGCGGCG---CGAAGCgUGGCGCGG- -5'
11562 3' -64 NC_003085.1 + 21691 0.79 0.033883
Target:  5'- cAUGGCCGUcuCGCGCgggUCGC-UCGCGCCa -3'
miRNA:   3'- -UGCCGGCG--GCGCGa--AGCGuGGCGCGG- -5'
11562 3' -64 NC_003085.1 + 15025 0.78 0.040045
Target:  5'- -gGGCCGCCaGCGCUUCGCGcaguuCCGCGa- -3'
miRNA:   3'- ugCCGGCGG-CGCGAAGCGU-----GGCGCgg -5'
11562 3' -64 NC_003085.1 + 15181 0.77 0.041059
Target:  5'- gACGGCCcggcugaGCCgGUGCgccaGCGCCGCGCCg -3'
miRNA:   3'- -UGCCGG-------CGG-CGCGaag-CGUGGCGCGG- -5'
11562 3' -64 NC_003085.1 + 2436 0.77 0.042333
Target:  5'- cGCGcGCCGCgGC-C-UCGCACUGCGCCu -3'
miRNA:   3'- -UGC-CGGCGgCGcGaAGCGUGGCGCGG- -5'
11562 3' -64 NC_003085.1 + 44967 0.77 0.043524
Target:  5'- uUGGCCcagucGCCagcGCGCUUCGuCACCGUGCCc -3'
miRNA:   3'- uGCCGG-----CGG---CGCGAAGC-GUGGCGCGG- -5'
11562 3' -64 NC_003085.1 + 2155 0.77 0.044625
Target:  5'- uGCGGCgGCUGCGCUcgUCGCGucaccguCCGgGCCu -3'
miRNA:   3'- -UGCCGgCGGCGCGA--AGCGU-------GGCgCGG- -5'
11562 3' -64 NC_003085.1 + 22855 0.77 0.044749
Target:  5'- aGCGGCCGuuGcCGCUgccgUCGcCACCGCGgCg -3'
miRNA:   3'- -UGCCGGCggC-GCGA----AGC-GUGGCGCgG- -5'
11562 3' -64 NC_003085.1 + 21825 0.76 0.049577
Target:  5'- -aGGCCGCCgagcucaucaagucGCGCUUCuccauGUACCGCGUCg -3'
miRNA:   3'- ugCCGGCGG--------------CGCGAAG-----CGUGGCGCGG- -5'
11562 3' -64 NC_003085.1 + 40625 0.76 0.055828
Target:  5'- gACGGCCGCUGcCGUccucgUCGCccugacgcugGCUGCGCCg -3'
miRNA:   3'- -UGCCGGCGGC-GCGa----AGCG----------UGGCGCGG- -5'
11562 3' -64 NC_003085.1 + 24619 0.75 0.060469
Target:  5'- -aGGCauguccgCGCCGCGCa-CGCACCGCGaCCa -3'
miRNA:   3'- ugCCG-------GCGGCGCGaaGCGUGGCGC-GG- -5'
11562 3' -64 NC_003085.1 + 20425 0.75 0.060636
Target:  5'- cCGGCCGCuccCGCGCUgagGCGCCGUgGCCc -3'
miRNA:   3'- uGCCGGCG---GCGCGAag-CGUGGCG-CGG- -5'
11562 3' -64 NC_003085.1 + 4246 0.75 0.067672
Target:  5'- -gGGCCGCaGCGCUUCGCG-CGCuugGCCu -3'
miRNA:   3'- ugCCGGCGgCGCGAAGCGUgGCG---CGG- -5'
11562 3' -64 NC_003085.1 + 5226 0.75 0.06955
Target:  5'- gAUGGCCGCUGC-CUUCGCGUCG-GCCu -3'
miRNA:   3'- -UGCCGGCGGCGcGAAGCGUGGCgCGG- -5'
11562 3' -64 NC_003085.1 + 15268 0.74 0.073459
Target:  5'- cGCGG-CGCgGCGCUggCGCACCGgcucaGCCg -3'
miRNA:   3'- -UGCCgGCGgCGCGAa-GCGUGGCg----CGG- -5'
11562 3' -64 NC_003085.1 + 25216 0.74 0.081917
Target:  5'- cCGGCCacaCCGCGCUUCGUggugcCCGCGUa -3'
miRNA:   3'- uGCCGGc--GGCGCGAAGCGu----GGCGCGg -5'
11562 3' -64 NC_003085.1 + 25319 0.74 0.081917
Target:  5'- gACGcCCGCCGCGgagCGCACCagggcgGCGCCg -3'
miRNA:   3'- -UGCcGGCGGCGCgaaGCGUGG------CGCGG- -5'
11562 3' -64 NC_003085.1 + 1581 0.74 0.081917
Target:  5'- cUGGCgGCCGUGaggCGCACCG-GCCg -3'
miRNA:   3'- uGCCGgCGGCGCgaaGCGUGGCgCGG- -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.