miRNA display CGI


Results 1 - 20 of 20 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
23749 5' -56.4 NC_005261.1 + 68596 0.66 0.922997
Target:  5'- gCCGcgGgagCgGGGCCgaCGG-CGUGGGGGa -3'
miRNA:   3'- -GGCa-Caa-GaCCUGG--GCCuGCAUCCCC- -5'
23749 5' -56.4 NC_005261.1 + 2551 0.66 0.922997
Target:  5'- gCCGcgGcgCUGGGCgCGGGCGUGuGGu -3'
miRNA:   3'- -GGCa-CaaGACCUGgGCCUGCAUcCCc -5'
23749 5' -56.4 NC_005261.1 + 33694 0.66 0.917507
Target:  5'- cCCGgggUCgcgcgGGGCCCgcugcacgagGGGCGgUGGGGGc -3'
miRNA:   3'- -GGCacaAGa----CCUGGG----------CCUGC-AUCCCC- -5'
23749 5' -56.4 NC_005261.1 + 32919 0.66 0.911788
Target:  5'- gCGUGgg--GGGCggCGGGCGgggGGGGGg -3'
miRNA:   3'- gGCACaagaCCUGg-GCCUGCa--UCCCC- -5'
23749 5' -56.4 NC_005261.1 + 16159 0.66 0.911788
Target:  5'- aCCGgcagGgcaguaggGGGCgCGGGCGUGGcGGGg -3'
miRNA:   3'- -GGCa---Caaga----CCUGgGCCUGCAUC-CCC- -5'
23749 5' -56.4 NC_005261.1 + 86521 0.67 0.893282
Target:  5'- gCCGUccuugUCgcagcgcgGGuuCCCGGccACGUAGGGGg -3'
miRNA:   3'- -GGCAca---AGa-------CCu-GGGCC--UGCAUCCCC- -5'
23749 5' -56.4 NC_005261.1 + 97358 0.67 0.893282
Target:  5'- aCCGUGgggUCUacGGCCCGGGCGUGu--- -3'
miRNA:   3'- -GGCACa--AGAc-CUGGGCCUGCAUcccc -5'
23749 5' -56.4 NC_005261.1 + 22052 0.67 0.879845
Target:  5'- uCCGgcgggGUUCagGGGCuCCGG-CGgggcucgAGGGGg -3'
miRNA:   3'- -GGCa----CAAGa-CCUG-GGCCuGCa------UCCCC- -5'
23749 5' -56.4 NC_005261.1 + 98427 0.67 0.865563
Target:  5'- gCCGUcccCUgcGGACCCGGGCcgGUAGGcGGc -3'
miRNA:   3'- -GGCAcaaGA--CCUGGGCCUG--CAUCC-CC- -5'
23749 5' -56.4 NC_005261.1 + 15930 0.67 0.865563
Target:  5'- gCCG-GggCcgGGGCCCGGGCaGgagccGGGGGc -3'
miRNA:   3'- -GGCaCaaGa-CCUGGGCCUG-Ca----UCCCC- -5'
23749 5' -56.4 NC_005261.1 + 133519 0.67 0.86112
Target:  5'- aCCGUGUUCaccgUGGACCUcucgGGGCGcgcagcgcagcaugcUgcucGGGGGg -3'
miRNA:   3'- -GGCACAAG----ACCUGGG----CCUGC---------------A----UCCCC- -5'
23749 5' -56.4 NC_005261.1 + 68248 0.67 0.86112
Target:  5'- gCGUGUUCgUGGacuGCCUGGcgcgccugcgcccgcGCGgcGGGGc -3'
miRNA:   3'- gGCACAAG-ACC---UGGGCC---------------UGCauCCCC- -5'
23749 5' -56.4 NC_005261.1 + 30792 0.68 0.850477
Target:  5'- gCgGUGgaggugCUGGGgCCGGAgGagcUGGGGGg -3'
miRNA:   3'- -GgCACaa----GACCUgGGCCUgC---AUCCCC- -5'
23749 5' -56.4 NC_005261.1 + 98053 0.68 0.842647
Target:  5'- gCCGcGggCggcgGGACCgCGGGCGgcGGGu -3'
miRNA:   3'- -GGCaCaaGa---CCUGG-GCCUGCauCCCc -5'
23749 5' -56.4 NC_005261.1 + 83857 0.68 0.842647
Target:  5'- cCCGcUGggCUGGGCcgggCCGGACGccGGGu -3'
miRNA:   3'- -GGC-ACaaGACCUG----GGCCUGCauCCCc -5'
23749 5' -56.4 NC_005261.1 + 111068 0.7 0.70747
Target:  5'- cCCGUcGUcaggaUCgaGGGCCUGG-UGUGGGGGg -3'
miRNA:   3'- -GGCA-CA-----AGa-CCUGGGCCuGCAUCCCC- -5'
23749 5' -56.4 NC_005261.1 + 71620 0.71 0.657927
Target:  5'- cCCGgGcgC-GGGCCCGGGCGgcGGGa -3'
miRNA:   3'- -GGCaCaaGaCCUGGGCCUGCauCCCc -5'
23749 5' -56.4 NC_005261.1 + 29440 0.72 0.627898
Target:  5'- gCCGUGUUC--GugCCGGAgaUGGGGGa -3'
miRNA:   3'- -GGCACAAGacCugGGCCUgcAUCCCC- -5'
23749 5' -56.4 NC_005261.1 + 128786 0.73 0.587934
Target:  5'- gCCGUugUCUGGgcGCCCGGgcccGCGgcGGGGc -3'
miRNA:   3'- -GGCAcaAGACC--UGGGCC----UGCauCCCC- -5'
23749 5' -56.4 NC_005261.1 + 36914 0.73 0.558258
Target:  5'- cCCGcg--CUGGGCCgGGACGUAcuccGGGGc -3'
miRNA:   3'- -GGCacaaGACCUGGgCCUGCAU----CCCC- -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.