miRNA display CGI


Results 1 - 20 of 50 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
9713 3' -55.9 NC_002577.1 + 2900 0.66 0.914423
Target:  5'- ---gCCGAGGGUAGGCGUCgagaaaaUCGCGa -3'
miRNA:   3'- ucgaGGUUUUCGUCCGCAGa------GGCGCc -5'
9713 3' -55.9 NC_002577.1 + 4807 0.74 0.525162
Target:  5'- cGUUCCAAAcgucggacgggacGGCGcGGCGUCgucgcgcgCCGCGGa -3'
miRNA:   3'- uCGAGGUUU-------------UCGU-CCGCAGa-------GGCGCC- -5'
9713 3' -55.9 NC_002577.1 + 8046 0.72 0.606301
Target:  5'- cGCUCCGGGccggagaggcuGGCGGGCGggucUCUCCGUa- -3'
miRNA:   3'- uCGAGGUUU-----------UCGUCCGC----AGAGGCGcc -5'
9713 3' -55.9 NC_002577.1 + 9583 0.67 0.870944
Target:  5'- cGCUCCAAAAG-AGaGCGUUccguuugacggagcCCGCGGu -3'
miRNA:   3'- uCGAGGUUUUCgUC-CGCAGa-------------GGCGCC- -5'
9713 3' -55.9 NC_002577.1 + 10569 0.68 0.844861
Target:  5'- uGUUCCGcGAGC-GGCGUUcggCCGCGu -3'
miRNA:   3'- uCGAGGUuUUCGuCCGCAGa--GGCGCc -5'
9713 3' -55.9 NC_002577.1 + 10965 0.67 0.860489
Target:  5'- cGGCUCgCGuucGCGGGgGUCgCCGaCGGg -3'
miRNA:   3'- -UCGAG-GUuuuCGUCCgCAGaGGC-GCC- -5'
9713 3' -55.9 NC_002577.1 + 12103 0.67 0.875298
Target:  5'- cGGCgcgCC-GGAGCAGGCGcgcgugcgccUCgUCCGCGu -3'
miRNA:   3'- -UCGa--GGuUUUCGUCCGC----------AG-AGGCGCc -5'
9713 3' -55.9 NC_002577.1 + 23371 0.71 0.687601
Target:  5'- cGCUCUAu--GCAGGCGUCgCgGcCGGa -3'
miRNA:   3'- uCGAGGUuuuCGUCCGCAGaGgC-GCC- -5'
9713 3' -55.9 NC_002577.1 + 24965 0.66 0.909082
Target:  5'- aGGCggUCCuacucaauucaCGGGCGUCUCCGUGa -3'
miRNA:   3'- -UCG--AGGuuuuc------GUCCGCAGAGGCGCc -5'
9713 3' -55.9 NC_002577.1 + 26085 1.11 0.00228
Target:  5'- cAGCUCCAAAAGCAGGCGUCUCCGCGGg -3'
miRNA:   3'- -UCGAGGUUUUCGUCCGCAGAGGCGCC- -5'
9713 3' -55.9 NC_002577.1 + 46878 0.66 0.930845
Target:  5'- gGGCUCuCAGucGCAuGCGUCUgcaCGCGu -3'
miRNA:   3'- -UCGAG-GUUuuCGUcCGCAGAg--GCGCc -5'
9713 3' -55.9 NC_002577.1 + 48696 0.66 0.908477
Target:  5'- gGGCcCCG--GGCAGGUggaucacgcaGUC-CCGCGGc -3'
miRNA:   3'- -UCGaGGUuuUCGUCCG----------CAGaGGCGCC- -5'
9713 3' -55.9 NC_002577.1 + 53752 0.66 0.902297
Target:  5'- gAGCgUCCAGAAGU--GCuUCUCCGCcGGu -3'
miRNA:   3'- -UCG-AGGUUUUCGucCGcAGAGGCG-CC- -5'
9713 3' -55.9 NC_002577.1 + 77904 0.66 0.930845
Target:  5'- uGGUcacgUCUAaagucGAAGCA-GCGUCcCCGCGGg -3'
miRNA:   3'- -UCG----AGGU-----UUUCGUcCGCAGaGGCGCC- -5'
9713 3' -55.9 NC_002577.1 + 80883 0.71 0.697647
Target:  5'- gAGCUgCGAuGGCuguauuGGCGUCUCuCGCGc -3'
miRNA:   3'- -UCGAgGUUuUCGu-----CCGCAGAG-GCGCc -5'
9713 3' -55.9 NC_002577.1 + 83704 0.66 0.925608
Target:  5'- gAGcCUCCucggGAGGCAGGaCGUaugcguccucCUCCGCa- -3'
miRNA:   3'- -UC-GAGGu---UUUCGUCC-GCA----------GAGGCGcc -5'
9713 3' -55.9 NC_002577.1 + 90558 0.66 0.925608
Target:  5'- cAGCUCCcc--GCAGGCGUaguacaCGCGc -3'
miRNA:   3'- -UCGAGGuuuuCGUCCGCAgag---GCGCc -5'
9713 3' -55.9 NC_002577.1 + 101316 0.69 0.784526
Target:  5'- cGgUCCGAu-GCGGGCGaaggCUCCGCa- -3'
miRNA:   3'- uCgAGGUUuuCGUCCGCa---GAGGCGcc -5'
9713 3' -55.9 NC_002577.1 + 113055 0.7 0.727423
Target:  5'- uAGCUCUGAAAGCcagGGGgGUugacauuaacgaCUCUGCGGc -3'
miRNA:   3'- -UCGAGGUUUUCG---UCCgCA------------GAGGCGCC- -5'
9713 3' -55.9 NC_002577.1 + 121595 0.67 0.875298
Target:  5'- cGGCgcgCC-GGAGCAGGCGcgcgugcgccUCgUCCGCGu -3'
miRNA:   3'- -UCGa--GGuUUUCGUCCGC----------AG-AGGCGCc -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.