miRNA display CGI


Results 1 - 14 of 14 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
23194 3' -54.1 NC_005259.1 + 4367 0.66 0.788009
Target:  5'- --cGGcacgcccgUGCCC-UGCUCAUcGCCaAGCa -3'
miRNA:   3'- uuaCCa-------ACGGGaACGAGUA-CGGcUCG- -5'
23194 3' -54.1 NC_005259.1 + 5692 0.67 0.714741
Target:  5'- -----cUGCCUgcugUGCUCGUGCCGccaaGGCc -3'
miRNA:   3'- uuaccaACGGGa---ACGAGUACGGC----UCG- -5'
23194 3' -54.1 NC_005259.1 + 7309 0.67 0.714741
Target:  5'- -uUGGgUGCCCgaGUUCAccgccgucGCCGAGUa -3'
miRNA:   3'- uuACCaACGGGaaCGAGUa-------CGGCUCG- -5'
23194 3' -54.1 NC_005259.1 + 22917 0.7 0.527082
Target:  5'- --aGGaUGCCCUcgUGCUCGaccucGCCGGGUc -3'
miRNA:   3'- uuaCCaACGGGA--ACGAGUa----CGGCUCG- -5'
23194 3' -54.1 NC_005259.1 + 26055 0.67 0.703843
Target:  5'- --gGGUUGgCCaUGC-CGccGCCGAGCa -3'
miRNA:   3'- uuaCCAACgGGaACGaGUa-CGGCUCG- -5'
23194 3' -54.1 NC_005259.1 + 26828 0.67 0.724477
Target:  5'- cGGUGG-UGCCggggcggucUGCUCGggcaggaUGCCGAGCu -3'
miRNA:   3'- -UUACCaACGGga-------ACGAGU-------ACGGCUCG- -5'
23194 3' -54.1 NC_005259.1 + 36203 0.73 0.40565
Target:  5'- -----aUGCCCaUGCUCGacagcgcgaUGCCGAGCa -3'
miRNA:   3'- uuaccaACGGGaACGAGU---------ACGGCUCG- -5'
23194 3' -54.1 NC_005259.1 + 43839 0.7 0.527082
Target:  5'- --aGGgccGCCgCUcGC-CAUGCCGAGCg -3'
miRNA:   3'- uuaCCaa-CGG-GAaCGaGUACGGCUCG- -5'
23194 3' -54.1 NC_005259.1 + 44304 0.73 0.387159
Target:  5'- --gGGUUGCCCUcuuUGaCgagCGUGuuGAGCg -3'
miRNA:   3'- uuaCCAACGGGA---AC-Ga--GUACggCUCG- -5'
23194 3' -54.1 NC_005259.1 + 55105 0.68 0.659648
Target:  5'- cGAUGGcggcgaaaaaUGCaCCggcUGC-CGUGCCGAGCa -3'
miRNA:   3'- -UUACCa---------ACG-GGa--ACGaGUACGGCUCG- -5'
23194 3' -54.1 NC_005259.1 + 56406 0.7 0.548729
Target:  5'- cGAUGGUgcccgGCCCgccgaGCUCAaGCaGAGCa -3'
miRNA:   3'- -UUACCAa----CGGGaa---CGAGUaCGgCUCG- -5'
23194 3' -54.1 NC_005259.1 + 63408 1.1 0.001066
Target:  5'- cAAUGGUUGCCCUUGCUCAUGCCGAGCa -3'
miRNA:   3'- -UUACCAACGGGAACGAGUACGGCUCG- -5'
23194 3' -54.1 NC_005259.1 + 66807 0.7 0.567343
Target:  5'- cGAUGGUgcgUGCCCUgccggucucgaaacUcugGCUCAUGCCGcccGCa -3'
miRNA:   3'- -UUACCA---ACGGGA--------------A---CGAGUACGGCu--CG- -5'
23194 3' -54.1 NC_005259.1 + 67112 0.66 0.757374
Target:  5'- --aGGUguacUGCCCgcUGCggUCGUGCgUGAGCa -3'
miRNA:   3'- uuaCCA----ACGGGa-ACG--AGUACG-GCUCG- -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.