miRNA display CGI


Results 1 - 17 of 17 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
23129 3' -53.9 NC_005178.1 + 17327 0.66 0.713281
Target:  5'- uGCGAgaGGCUccaGAcCGucGAUGGCGGGg -3'
miRNA:   3'- gCGCU--UCGA---CUaGCuuCUGCCGCUCa -5'
23129 3' -53.9 NC_005178.1 + 35056 0.66 0.713281
Target:  5'- gCGCGuucGUUGAUCGcGGAacCGGCGAc- -3'
miRNA:   3'- -GCGCuu-CGACUAGCuUCU--GCCGCUca -5'
23129 3' -53.9 NC_005178.1 + 907 0.66 0.702153
Target:  5'- uCGCGAuacGUUGGUCauuuGAAGAUaGCGGGUa -3'
miRNA:   3'- -GCGCUu--CGACUAG----CUUCUGcCGCUCA- -5'
23129 3' -53.9 NC_005178.1 + 34583 0.66 0.690952
Target:  5'- cCGgGGAGCUGGcCGGgcgAGuCGGUGAGc -3'
miRNA:   3'- -GCgCUUCGACUaGCU---UCuGCCGCUCa -5'
23129 3' -53.9 NC_005178.1 + 22266 0.66 0.690952
Target:  5'- cCGCcAGGCUGGccCGccAGGCGGCGGGc -3'
miRNA:   3'- -GCGcUUCGACUa-GCu-UCUGCCGCUCa -5'
23129 3' -53.9 NC_005178.1 + 18006 0.66 0.679691
Target:  5'- gGCGGaucAGgUGAUCacgcAGAUGGCGGGUc -3'
miRNA:   3'- gCGCU---UCgACUAGcu--UCUGCCGCUCA- -5'
23129 3' -53.9 NC_005178.1 + 36425 0.67 0.645664
Target:  5'- -aCGggGCgacGAUUacGGACGGCGGGa -3'
miRNA:   3'- gcGCuuCGa--CUAGcuUCUGCCGCUCa -5'
23129 3' -53.9 NC_005178.1 + 22787 0.67 0.622894
Target:  5'- gGCcGAcCUGGUCGAgcAGuACGGCGAGg -3'
miRNA:   3'- gCGcUUcGACUAGCU--UC-UGCCGCUCa -5'
23129 3' -53.9 NC_005178.1 + 37405 0.67 0.622894
Target:  5'- gGCGGAGCUGcUUGAGGugGGg---- -3'
miRNA:   3'- gCGCUUCGACuAGCUUCugCCgcuca -5'
23129 3' -53.9 NC_005178.1 + 30418 0.68 0.566296
Target:  5'- aCGUGggGCUGAUCGAc----GCGAGc -3'
miRNA:   3'- -GCGCuuCGACUAGCUucugcCGCUCa -5'
23129 3' -53.9 NC_005178.1 + 7084 0.69 0.521982
Target:  5'- gGCGAGGCggugaccucGGUCGAGuGCaGCGAGUa -3'
miRNA:   3'- gCGCUUCGa--------CUAGCUUcUGcCGCUCA- -5'
23129 3' -53.9 NC_005178.1 + 17069 0.69 0.479076
Target:  5'- gGCGAccuucAGCUGggCGguGGCGGCGGc- -3'
miRNA:   3'- gCGCU-----UCGACuaGCuuCUGCCGCUca -5'
23129 3' -53.9 NC_005178.1 + 20574 0.7 0.448061
Target:  5'- uCGCGgcGCUGAccucUCGccucaacGGCGGCGAGc -3'
miRNA:   3'- -GCGCuuCGACU----AGCuu-----CUGCCGCUCa -5'
23129 3' -53.9 NC_005178.1 + 30654 0.73 0.296119
Target:  5'- gGCGAgcAGCUGGaCGAAGACgGGCGGa- -3'
miRNA:   3'- gCGCU--UCGACUaGCUUCUG-CCGCUca -5'
23129 3' -53.9 NC_005178.1 + 36949 0.76 0.205861
Target:  5'- uGCGAAGCcuGUCGAAGGCgcgaagagcauugagGGCGAGUa -3'
miRNA:   3'- gCGCUUCGacUAGCUUCUG---------------CCGCUCA- -5'
23129 3' -53.9 NC_005178.1 + 10971 0.78 0.149527
Target:  5'- aGCGAAucccuuGCUGAUCGAGGGCGGCu--- -3'
miRNA:   3'- gCGCUU------CGACUAGCUUCUGCCGcuca -5'
23129 3' -53.9 NC_005178.1 + 20112 1.08 0.00098
Target:  5'- cCGCGAAGCUGAUCGAAGACGGCGAGUa -3'
miRNA:   3'- -GCGCUUCGACUAGCUUCUGCCGCUCA- -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.