miRNA display CGI


Results 1 - 20 of 21 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
11997 3' -54 NC_003278.1 + 27431 0.66 0.686731
Target:  5'- cGGUcggaGCCGGaggaaagauacugguUGGCGu-UGGCCUGCa -3'
miRNA:   3'- -UCAagg-CGGCU---------------ACCGCuuACUGGACG- -5'
11997 3' -54 NC_003278.1 + 14802 0.66 0.675388
Target:  5'- gGGUUgCUGCCGGcggugacgaugccauUGGCGuugacGGUGACC-GCa -3'
miRNA:   3'- -UCAA-GGCGGCU---------------ACCGC-----UUACUGGaCG- -5'
11997 3' -54 NC_003278.1 + 28250 0.66 0.670838
Target:  5'- gGGUUCCuuGUCGGUGGCcggcGAUcGCUUGCu -3'
miRNA:   3'- -UCAAGG--CGGCUACCGc---UUAcUGGACG- -5'
11997 3' -54 NC_003278.1 + 7451 0.66 0.670838
Target:  5'- cGUUgCCGCUGGUGGUG-GUGucguACCaGCg -3'
miRNA:   3'- uCAA-GGCGGCUACCGCuUAC----UGGaCG- -5'
11997 3' -54 NC_003278.1 + 17174 0.66 0.659436
Target:  5'- uGGUgcccgCCuuGCCGAUGGCa----GCCUGCa -3'
miRNA:   3'- -UCAa----GG--CGGCUACCGcuuacUGGACG- -5'
11997 3' -54 NC_003278.1 + 23008 0.67 0.620535
Target:  5'- ---cCCGCCagGAUGGCGAccagcaccgcuACCUGCa -3'
miRNA:   3'- ucaaGGCGG--CUACCGCUuac--------UGGACG- -5'
11997 3' -54 NC_003278.1 + 33205 0.67 0.613671
Target:  5'- cGGUUCCGCCGGcugcGGCcGAGgccaucGCCgGCg -3'
miRNA:   3'- -UCAAGGCGGCUa---CCG-CUUac----UGGaCG- -5'
11997 3' -54 NC_003278.1 + 8812 0.67 0.609098
Target:  5'- cAGcgCCGCCGAgGGCGGccagggucuucgGGCCaGCg -3'
miRNA:   3'- -UCaaGGCGGCUaCCGCUua----------CUGGaCG- -5'
11997 3' -54 NC_003278.1 + 21411 0.67 0.579489
Target:  5'- cGGcgCCGCCGAcgcgcuggacGGCGcgcuUGAUCUGCc -3'
miRNA:   3'- -UCaaGGCGGCUa---------CCGCuu--ACUGGACG- -5'
11997 3' -54 NC_003278.1 + 23314 0.67 0.563667
Target:  5'- cAGUUCCgggaucagguccgGCCGGccccUGGCGAgcgcguagcugagcGUGGCgCUGCc -3'
miRNA:   3'- -UCAAGG-------------CGGCU----ACCGCU--------------UACUG-GACG- -5'
11997 3' -54 NC_003278.1 + 21422 0.68 0.533503
Target:  5'- gGGUgUUCGCCGAccugGGCGGguucaccAUGGCCgGCc -3'
miRNA:   3'- -UCA-AGGCGGCUa---CCGCU-------UACUGGaCG- -5'
11997 3' -54 NC_003278.1 + 22814 0.68 0.512625
Target:  5'- cGGUgcUCgCGCCGGcgcUGGCG---GGCCUGCc -3'
miRNA:   3'- -UCA--AG-GCGGCU---ACCGCuuaCUGGACG- -5'
11997 3' -54 NC_003278.1 + 4549 0.69 0.469848
Target:  5'- gAGUUCggCGCCuAUGGCGAcgugcUGGCgUGCa -3'
miRNA:   3'- -UCAAG--GCGGcUACCGCUu----ACUGgACG- -5'
11997 3' -54 NC_003278.1 + 15343 0.69 0.459437
Target:  5'- aGGggCUGguuaCCGGUGGCG-GUGGCCUGa -3'
miRNA:   3'- -UCaaGGC----GGCUACCGCuUACUGGACg -5'
11997 3' -54 NC_003278.1 + 6942 0.7 0.449151
Target:  5'- ---aCCGCCucUGGCGGuUGACCgaGCg -3'
miRNA:   3'- ucaaGGCGGcuACCGCUuACUGGa-CG- -5'
11997 3' -54 NC_003278.1 + 13266 0.7 0.416138
Target:  5'- cAGgUCCGCCGG-GGCGcugccguugcccugGGcGGCCUGCa -3'
miRNA:   3'- -UCaAGGCGGCUaCCGC--------------UUaCUGGACG- -5'
11997 3' -54 NC_003278.1 + 12566 0.71 0.375428
Target:  5'- cGGUUCCcaGCgcaugagggccauggCGGUGGCGGcAUaGACCUGCa -3'
miRNA:   3'- -UCAAGG--CG---------------GCUACCGCU-UA-CUGGACG- -5'
11997 3' -54 NC_003278.1 + 21055 0.72 0.336648
Target:  5'- ---gCCGCCGucGUGGCGGugcUGGCCgGCg -3'
miRNA:   3'- ucaaGGCGGC--UACCGCUu--ACUGGaCG- -5'
11997 3' -54 NC_003278.1 + 33033 0.73 0.266683
Target:  5'- ----aUGCCGAaGGCGAAcgaccggcUGACCUGCa -3'
miRNA:   3'- ucaagGCGGCUaCCGCUU--------ACUGGACG- -5'
11997 3' -54 NC_003278.1 + 21756 0.75 0.208956
Target:  5'- cGGU--UGUCGAUGGUG-AUGGCCUGCg -3'
miRNA:   3'- -UCAagGCGGCUACCGCuUACUGGACG- -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.