miRNA display CGI


Results 1 - 20 of 77 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
28019 3' -53.8 NC_005887.1 + 30568 0.66 0.725419
Target:  5'- aCGCcGCCgAGCAGCGA---GG-ACGCc -3'
miRNA:   3'- cGCGaCGG-UCGUCGCUacuUCaUGCG- -5'
28019 3' -53.8 NC_005887.1 + 38744 0.68 0.567422
Target:  5'- aGCGCUGCgCGGCcuGGCGcaacGUGAGcucccacugcacGUGCGUc -3'
miRNA:   3'- -CGCGACG-GUCG--UCGC----UACUU------------CAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 26209 0.68 0.556231
Target:  5'- gGCGC-GCCGGUgguuGGCGggGuGGUuGCGCg -3'
miRNA:   3'- -CGCGaCGGUCG----UCGCuaCuUCA-UGCG- -5'
28019 3' -53.8 NC_005887.1 + 28749 1.15 0.000343
Target:  5'- cGCGCUGCCAGCAGCGAUGAAGUACGCg -3'
miRNA:   3'- -CGCGACGGUCGUCGCUACUUCAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 34918 0.66 0.692073
Target:  5'- cGCGCacGCCAGCccaaacgaGGCGgcGGcgGGUGCGa -3'
miRNA:   3'- -CGCGa-CGGUCG--------UCGCuaCU--UCAUGCg -5'
28019 3' -53.8 NC_005887.1 + 29791 0.66 0.692073
Target:  5'- uGCGCaUGCCGGCGGCc--GucG-ACGCc -3'
miRNA:   3'- -CGCG-ACGGUCGUCGcuaCuuCaUGCG- -5'
28019 3' -53.8 NC_005887.1 + 27974 0.67 0.65817
Target:  5'- cGCGC-GCCgAGCGGCGAcucGAacaGGUGCccgGCa -3'
miRNA:   3'- -CGCGaCGG-UCGUCGCUa--CU---UCAUG---CG- -5'
28019 3' -53.8 NC_005887.1 + 13945 0.67 0.65817
Target:  5'- cGCGC-GCuCGGCuGCGAc---GUGCGCg -3'
miRNA:   3'- -CGCGaCG-GUCGuCGCUacuuCAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 8485 0.68 0.605836
Target:  5'- aGCGCUGUCGGCuGCcgcaggcucGUACGCc -3'
miRNA:   3'- -CGCGACGGUCGuCGcuacuu---CAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 31043 0.68 0.578668
Target:  5'- gGCGCUcgcugccgaGCCGGCcgcuGCGAgcaGAGGUagaaACGCc -3'
miRNA:   3'- -CGCGA---------CGGUCGu---CGCUa--CUUCA----UGCG- -5'
28019 3' -53.8 NC_005887.1 + 30331 0.68 0.601294
Target:  5'- -gGUUGCgAGCGGCG-UGc-GUGCGCc -3'
miRNA:   3'- cgCGACGgUCGUCGCuACuuCAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 23454 0.68 0.609244
Target:  5'- cGgGCUGCCGGUgccgGGCGAccagaaauaaucguUGuGGUACuGCg -3'
miRNA:   3'- -CgCGACGGUCG----UCGCU--------------ACuUCAUG-CG- -5'
28019 3' -53.8 NC_005887.1 + 18960 0.66 0.725419
Target:  5'- uGCgGCUGCCAGCGGCa-------GCGCg -3'
miRNA:   3'- -CG-CGACGGUCGUCGcuacuucaUGCG- -5'
28019 3' -53.8 NC_005887.1 + 20769 0.68 0.589962
Target:  5'- cGUGCcgacgaUGCCGGCAGUacugGAUGgcGUaauuGCGCc -3'
miRNA:   3'- -CGCG------ACGGUCGUCG----CUACuuCA----UGCG- -5'
28019 3' -53.8 NC_005887.1 + 34256 0.66 0.714386
Target:  5'- aGCGCgGCgAGCuGCGcgcgcgcuuucGUGAAcgaccagacGUGCGCa -3'
miRNA:   3'- -CGCGaCGgUCGuCGC-----------UACUU---------CAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 26117 0.67 0.624033
Target:  5'- uGCGCUcGCCGGcCGGCGuaucgaucGUGAccUGCGUg -3'
miRNA:   3'- -CGCGA-CGGUC-GUCGC--------UACUucAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 6491 0.68 0.589962
Target:  5'- gGUGuCUGCCgAGCgcaauccgcaGGCGAUGAucUACGCc -3'
miRNA:   3'- -CGC-GACGG-UCG----------UCGCUACUucAUGCG- -5'
28019 3' -53.8 NC_005887.1 + 1677 0.68 0.564058
Target:  5'- cGCGC-GCCAGguGCaggauggugcggccGGUGAucgGCGCg -3'
miRNA:   3'- -CGCGaCGGUCguCG--------------CUACUucaUGCG- -5'
28019 3' -53.8 NC_005887.1 + 20197 0.66 0.703267
Target:  5'- uGCGC-GUCAGCccuucGcCGAUGAAGccgaGCGCg -3'
miRNA:   3'- -CGCGaCGGUCGu----C-GCUACUUCa---UGCG- -5'
28019 3' -53.8 NC_005887.1 + 37501 0.66 0.680818
Target:  5'- uGCGCUGCaCGGgGGaCG-UGAucacggucgacuGGUugGCg -3'
miRNA:   3'- -CGCGACG-GUCgUC-GCuACU------------UCAugCG- -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.