miRNA display CGI


Results 1 - 20 of 61 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
23130 3' -57.1 NC_005178.1 + 20678 1.09 0.000337
Target:  5'- gAAUACGGCGCCAAGGACUUGGCCGGCu -3'
miRNA:   3'- -UUAUGCCGCGGUUCCUGAACCGGCCG- -5'
23130 3' -57.1 NC_005178.1 + 28143 0.84 0.025392
Target:  5'- --gGCGGCGcCCAGGGGCUgacGGUCGGCg -3'
miRNA:   3'- uuaUGCCGC-GGUUCCUGAa--CCGGCCG- -5'
23130 3' -57.1 NC_005178.1 + 16833 0.74 0.133929
Target:  5'- --gGCGGCGau--GGGCUUGGCCuGGCc -3'
miRNA:   3'- uuaUGCCGCgguuCCUGAACCGG-CCG- -5'
23130 3' -57.1 NC_005178.1 + 6062 0.73 0.16331
Target:  5'- --gACGGUGCCGAGGGg-UGGCCGc- -3'
miRNA:   3'- uuaUGCCGCGGUUCCUgaACCGGCcg -5'
23130 3' -57.1 NC_005178.1 + 3122 0.72 0.203876
Target:  5'- ---uCGGCGCCAGGGAggUcGaGCCGGUc -3'
miRNA:   3'- uuauGCCGCGGUUCCUgaA-C-CGGCCG- -5'
23130 3' -57.1 NC_005178.1 + 12941 0.72 0.209521
Target:  5'- --gGC-GCGCCAGGuGC-UGGCCGGCc -3'
miRNA:   3'- uuaUGcCGCGGUUCcUGaACCGGCCG- -5'
23130 3' -57.1 NC_005178.1 + 9895 0.71 0.2153
Target:  5'- cGUGCGcucgGCCAAGGACUuagGGCCGcGCc -3'
miRNA:   3'- uUAUGCcg--CGGUUCCUGAa--CCGGC-CG- -5'
23130 3' -57.1 NC_005178.1 + 26960 0.71 0.239797
Target:  5'- -cUGCGGUGCCGGcucGCUcGGCCGGUu -3'
miRNA:   3'- uuAUGCCGCGGUUcc-UGAaCCGGCCG- -5'
23130 3' -57.1 NC_005178.1 + 27652 0.7 0.252896
Target:  5'- --cGCGGCcCUAAGucCUUGGCCGaGCg -3'
miRNA:   3'- uuaUGCCGcGGUUCcuGAACCGGC-CG- -5'
23130 3' -57.1 NC_005178.1 + 12035 0.7 0.252896
Target:  5'- ---cUGGCGCCucGG-CUUGGCCcuGGCc -3'
miRNA:   3'- uuauGCCGCGGuuCCuGAACCGG--CCG- -5'
23130 3' -57.1 NC_005178.1 + 10314 0.7 0.252896
Target:  5'- --gGCGGauaGCCGAGGGCcgGGCgCGGa -3'
miRNA:   3'- uuaUGCCg--CGGUUCCUGaaCCG-GCCg -5'
23130 3' -57.1 NC_005178.1 + 28560 0.7 0.259663
Target:  5'- --cGCcGCGCCAccgGGGGCgucGCCGGCa -3'
miRNA:   3'- uuaUGcCGCGGU---UCCUGaacCGGCCG- -5'
23130 3' -57.1 NC_005178.1 + 19673 0.7 0.287471
Target:  5'- ---cCGcGUGCC-AGGGCUUGGCCagaagauGGCg -3'
miRNA:   3'- uuauGC-CGCGGuUCCUGAACCGG-------CCG- -5'
23130 3' -57.1 NC_005178.1 + 16590 0.7 0.288214
Target:  5'- --gAUGGCGCCGGcgaagaccuGGACgUUGGCCgcuaccGGCa -3'
miRNA:   3'- uuaUGCCGCGGUU---------CCUG-AACCGG------CCG- -5'
23130 3' -57.1 NC_005178.1 + 2876 0.7 0.288214
Target:  5'- --aACGGCugGCCAGGGuucagGCUacgGGCgCGGCg -3'
miRNA:   3'- uuaUGCCG--CGGUUCC-----UGAa--CCG-GCCG- -5'
23130 3' -57.1 NC_005178.1 + 29823 0.69 0.295727
Target:  5'- ----aGGCGCUucuucAGGuCUUcGGCCGGCu -3'
miRNA:   3'- uuaugCCGCGGu----UCCuGAA-CCGGCCG- -5'
23130 3' -57.1 NC_005178.1 + 26723 0.69 0.301075
Target:  5'- --aAgGGCGCCuGGGACgaaaugcucggcgugGGCCGGa -3'
miRNA:   3'- uuaUgCCGCGGuUCCUGaa-------------CCGGCCg -5'
23130 3' -57.1 NC_005178.1 + 20866 0.69 0.303391
Target:  5'- cGAUGCcuGCGCCGgccugaucgcccAGGACcgccucgccaUUGGCUGGCa -3'
miRNA:   3'- -UUAUGc-CGCGGU------------UCCUG----------AACCGGCCG- -5'
23130 3' -57.1 NC_005178.1 + 17154 0.69 0.303391
Target:  5'- aGGUugGuCGCCu-GGGCguccagGGCCGGCu -3'
miRNA:   3'- -UUAugCcGCGGuuCCUGaa----CCGGCCG- -5'
23130 3' -57.1 NC_005178.1 + 19886 0.69 0.311207
Target:  5'- gGAUG-GGCGCCcuauGGAUgugccgGGCUGGCg -3'
miRNA:   3'- -UUAUgCCGCGGuu--CCUGaa----CCGGCCG- -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.