miRNA display CGI


Results 1 - 20 of 30 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
18058 5' -55.8 NC_004680.1 + 36518 0.66 0.726809
Target:  5'- uCCGCuUGCCGGGucuugaccgcaaaguAGGUCUG---CGCCGc -3'
miRNA:   3'- -GGCG-ACGGCCU---------------UUCGGACuuaGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 44308 0.66 0.72259
Target:  5'- cCCGCUGCCGcuAGGCCcGGAcagUGCg- -3'
miRNA:   3'- -GGCGACGGCcuUUCGGaCUUa--GCGgu -5'
18058 5' -55.8 NC_004680.1 + 14703 0.66 0.716235
Target:  5'- aCUGCUgcGCCGGuucGCCaggcgacuucgcggGGAUCGCCGc -3'
miRNA:   3'- -GGCGA--CGGCCuuuCGGa-------------CUUAGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 22779 0.66 0.711982
Target:  5'- uCCGCc-CCGGGAgaaggcGGCC-GAGUCGUCGu -3'
miRNA:   3'- -GGCGacGGCCUU------UCGGaCUUAGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 11107 0.66 0.697003
Target:  5'- aCGggGCCGGggGGCCggcuggcccgaugGGGagGCCGg -3'
miRNA:   3'- gGCgaCGGCCuuUCGGa------------CUUagCGGU- -5'
18058 5' -55.8 NC_004680.1 + 19166 0.66 0.690544
Target:  5'- aCGUcGCCGGAuAGCCcgccGUCGUCGa -3'
miRNA:   3'- gGCGaCGGCCUuUCGGacu-UAGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 30859 0.66 0.690544
Target:  5'- cCCGacuauCUGaCGGAGGGCCUGGugaAUCGUUAc -3'
miRNA:   3'- -GGC-----GACgGCCUUUCGGACU---UAGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 58747 0.66 0.679737
Target:  5'- -aGCUacggGuuGGGGAGCCgcGGUCGCCGg -3'
miRNA:   3'- ggCGA----CggCCUUUCGGacUUAGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 14933 0.66 0.679737
Target:  5'- gUCGCcgGaCUGGAGGGCC--GAUUGCCAu -3'
miRNA:   3'- -GGCGa-C-GGCCUUUCGGacUUAGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 12471 0.66 0.679737
Target:  5'- -gGCUGCCGGugcgccacAAAGCCUGu-UCaCCGg -3'
miRNA:   3'- ggCGACGGCC--------UUUCGGACuuAGcGGU- -5'
18058 5' -55.8 NC_004680.1 + 11283 0.66 0.679737
Target:  5'- aCGCUGCCGuGuucucCgCUGAAUCGUCGu -3'
miRNA:   3'- gGCGACGGC-Cuuuc-G-GACUUAGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 44149 0.66 0.679737
Target:  5'- gCUGCUGCugCGGAggugaccgaauGAGCCUGAGUUucaaaCCAg -3'
miRNA:   3'- -GGCGACG--GCCU-----------UUCGGACUUAGc----GGU- -5'
18058 5' -55.8 NC_004680.1 + 45277 0.67 0.668885
Target:  5'- uUCGCUGaCGGguGGCUUGu-UCGUCAa -3'
miRNA:   3'- -GGCGACgGCCuuUCGGACuuAGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 57702 0.67 0.657999
Target:  5'- aUCGUgucCCGcGAAAGCCUGAaccucAUCgGCCAa -3'
miRNA:   3'- -GGCGac-GGC-CUUUCGGACU-----UAG-CGGU- -5'
18058 5' -55.8 NC_004680.1 + 33113 0.67 0.657999
Target:  5'- gCCGCgacGUCGaaGAGGGCCgc-AUCGCCAc -3'
miRNA:   3'- -GGCGa--CGGC--CUUUCGGacuUAGCGGU- -5'
18058 5' -55.8 NC_004680.1 + 25747 0.67 0.64709
Target:  5'- gCCGgUGCCGGu--GCCgUGGuuGUCGCa- -3'
miRNA:   3'- -GGCgACGGCCuuuCGG-ACU--UAGCGgu -5'
18058 5' -55.8 NC_004680.1 + 47850 0.67 0.636167
Target:  5'- -gGCUGCggCGGuuGGCC-GggUCGCUg -3'
miRNA:   3'- ggCGACG--GCCuuUCGGaCuuAGCGGu -5'
18058 5' -55.8 NC_004680.1 + 14252 0.67 0.62524
Target:  5'- aCCGggGCUGGugucGCCUGAGUgaucaacgCGCCAc -3'
miRNA:   3'- -GGCgaCGGCCuuu-CGGACUUA--------GCGGU- -5'
18058 5' -55.8 NC_004680.1 + 25503 0.68 0.592533
Target:  5'- aCCGCgugGCgGGGcucaAGGCCUGAGaaaccgacccCGCCAc -3'
miRNA:   3'- -GGCGa--CGgCCU----UUCGGACUUa---------GCGGU- -5'
18058 5' -55.8 NC_004680.1 + 3082 0.68 0.560121
Target:  5'- gCCGC-GCCGGGAGcGUUguggGAGUUGCCc -3'
miRNA:   3'- -GGCGaCGGCCUUU-CGGa---CUUAGCGGu -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.