miRNA display CGI


Results 1 - 20 of 29 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
5979 5' -54.8 NC_001806.1 + 5806 1.08 0.004596
Target:  5'- gCGGUAAUGAGAUACGAGCCCCGCGCGc -3'
miRNA:   3'- -GCCAUUACUCUAUGCUCGGGGCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 20545 0.72 0.6734
Target:  5'- gCGGUAAUGAGAUgccaugcgggGCGGggcgcggacccacccGCCCuCGCGCc -3'
miRNA:   3'- -GCCAUUACUCUA----------UGCU---------------CGGG-GCGCGc -5'
5979 5' -54.8 NC_001806.1 + 45284 0.72 0.689622
Target:  5'- gCGGcgg-GAGAcGCGGG-CCCGCGCGg -3'
miRNA:   3'- -GCCauuaCUCUaUGCUCgGGGCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 121566 0.72 0.709722
Target:  5'- cCGGg---GGGcUGCGAGUCCUGCGCc -3'
miRNA:   3'- -GCCauuaCUCuAUGCUCGGGGCGCGc -5'
5979 5' -54.8 NC_001806.1 + 76554 0.71 0.72956
Target:  5'- gCGGggcugcggGAGGUGCuGGCCgCGCGCGa -3'
miRNA:   3'- -GCCauua----CUCUAUGcUCGGgGCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 139782 0.71 0.758661
Target:  5'- aGGUGGugcauguuuuUGAG-UACG-GCaCCCGCGCGa -3'
miRNA:   3'- gCCAUU----------ACUCuAUGCuCG-GGGCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 96738 0.7 0.768149
Target:  5'- aCGGUGGUGcAGuu-CGAGCagCCGCGCc -3'
miRNA:   3'- -GCCAUUAC-UCuauGCUCGg-GGCGCGc -5'
5979 5' -54.8 NC_001806.1 + 63000 0.7 0.786754
Target:  5'- uGGU--UGaAGggACGGGCCCCGCGa- -3'
miRNA:   3'- gCCAuuAC-UCuaUGCUCGGGGCGCgc -5'
5979 5' -54.8 NC_001806.1 + 99931 0.69 0.822226
Target:  5'- uGGUcccggGAGAaugGCGGGCCgCGCGCc -3'
miRNA:   3'- gCCAuua--CUCUa--UGCUCGGgGCGCGc -5'
5979 5' -54.8 NC_001806.1 + 136960 0.69 0.854938
Target:  5'- aCGcGUAGUGGGGgcccGCGAGCgUgGUGCGg -3'
miRNA:   3'- -GC-CAUUACUCUa---UGCUCGgGgCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 2517 0.68 0.862628
Target:  5'- uGGgcGgcGGggGCGGGCCCgGCGCa -3'
miRNA:   3'- gCCauUacUCuaUGCUCGGGgCGCGc -5'
5979 5' -54.8 NC_001806.1 + 3309 0.68 0.862628
Target:  5'- gCGGcgGcgGGGAaGCGGGgCCCGCGgGu -3'
miRNA:   3'- -GCCa-UuaCUCUaUGCUCgGGGCGCgC- -5'
5979 5' -54.8 NC_001806.1 + 141467 0.68 0.865647
Target:  5'- aCGGUcccaaccgauucuagAGUGGGAcGCcgccGCCCCGCGCu -3'
miRNA:   3'- -GCCA---------------UUACUCUaUGcu--CGGGGCGCGc -5'
5979 5' -54.8 NC_001806.1 + 151044 0.68 0.870111
Target:  5'- cCGGacGUGGG--GCGAGaagcgcaCCCGCGCGg -3'
miRNA:   3'- -GCCauUACUCuaUGCUCg------GGGCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 69408 0.68 0.891257
Target:  5'- gGGUuucuGGcgGCGGGCgucCCCGCGCGg -3'
miRNA:   3'- gCCAuuacUCuaUGCUCG---GGGCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 49254 0.67 0.904224
Target:  5'- aGGaGAUGGcGGgcgACGAGCcgCCCGUGCGc -3'
miRNA:   3'- gCCaUUACU-CUa--UGCUCG--GGGCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 92930 0.67 0.910358
Target:  5'- gCGGgccugGAGGc-CGGGgCCCGCGCGc -3'
miRNA:   3'- -GCCauua-CUCUauGCUCgGGGCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 32199 0.67 0.914511
Target:  5'- cCGGgggacGUGGGGUuggugugcaaaggcACGcGCaCCCGCGCGg -3'
miRNA:   3'- -GCCau---UACUCUA--------------UGCuCG-GGGCGCGC- -5'
5979 5' -54.8 NC_001806.1 + 23101 0.67 0.916256
Target:  5'- uGGUcgccgGGGcccUGGGCCCCGCGCu -3'
miRNA:   3'- gCCAuua--CUCuauGCUCGGGGCGCGc -5'
5979 5' -54.8 NC_001806.1 + 38097 0.67 0.920243
Target:  5'- uCGGUG--GGGGUugGAGgcgggccaccuugcCCCCGUGCu -3'
miRNA:   3'- -GCCAUuaCUCUAugCUC--------------GGGGCGCGc -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.