miRNA display CGI


Results 1 - 20 of 28 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
9741 3' -53.1 NC_002577.1 + 30955 0.67 0.971942
Target:  5'- cCAUGCUuuuUugCGGCcgUCGuGGAcuaCGGg -3'
miRNA:   3'- -GUACGA---GugGCCGuaAGC-CCUua-GCC- -5'
9741 3' -53.1 NC_002577.1 + 124705 0.73 0.738155
Target:  5'- --aGCUCACCGGCcccgCGGGAGaCGc -3'
miRNA:   3'- guaCGAGUGGCCGuaa-GCCCUUaGCc -5'
9741 3' -53.1 NC_002577.1 + 125668 0.72 0.776637
Target:  5'- --cGCguaagUACCGGCGUUCcGGGcGGUCGGc -3'
miRNA:   3'- guaCGa----GUGGCCGUAAG-CCC-UUAGCC- -5'
9741 3' -53.1 NC_002577.1 + 129026 0.71 0.826862
Target:  5'- gCGUGCUCuccuacgGCCGacucuugggagcguGCAUcguUCGGGggUCGGc -3'
miRNA:   3'- -GUACGAG-------UGGC--------------CGUA---AGCCCuuAGCC- -5'
9741 3' -53.1 NC_002577.1 + 157138 0.7 0.869996
Target:  5'- --cGCUCGCCGGUGcccUUCcuacuGGGAUCGGc -3'
miRNA:   3'- guaCGAGUGGCCGU---AAGc----CCUUAGCC- -5'
9741 3' -53.1 NC_002577.1 + 121913 0.7 0.884422
Target:  5'- --aGCcgGCCGGCcugcaGUUCGGGAAgagCGGg -3'
miRNA:   3'- guaCGagUGGCCG-----UAAGCCCUUa--GCC- -5'
9741 3' -53.1 NC_002577.1 + 15401 0.69 0.916455
Target:  5'- --cGCUUGCC-GCcgUCaGGAAUCGGa -3'
miRNA:   3'- guaCGAGUGGcCGuaAGcCCUUAGCC- -5'
9741 3' -53.1 NC_002577.1 + 101163 0.69 0.916455
Target:  5'- gGUGcCUC-CaaaaGGCGUUCGGGGGgcguuUCGGg -3'
miRNA:   3'- gUAC-GAGuGg---CCGUAAGCCCUU-----AGCC- -5'
9741 3' -53.1 NC_002577.1 + 157786 0.67 0.968422
Target:  5'- cCGUGCUUuCCGGCGUgcgcgccgccgcCGGGcg-CGGg -3'
miRNA:   3'- -GUACGAGuGGCCGUAa-----------GCCCuuaGCC- -5'
9741 3' -53.1 NC_002577.1 + 111865 1.1 0.005349
Target:  5'- aCAUGCUCACCGGCAUUCGGGAAUCGGc -3'
miRNA:   3'- -GUACGAGUGGCCGUAAGCCCUUAGCC- -5'
9741 3' -53.1 NC_002577.1 + 97479 0.67 0.969029
Target:  5'- aCGUGCUacUACCGuGCAcgUCGGGAAa--- -3'
miRNA:   3'- -GUACGA--GUGGC-CGUa-AGCCCUUagcc -5'
9741 3' -53.1 NC_002577.1 + 140257 0.66 0.983608
Target:  5'- --cGCUCGauuuaCGGCGggcUGGGAcUCGGu -3'
miRNA:   3'- guaCGAGUg----GCCGUaa-GCCCUuAGCC- -5'
9741 3' -53.1 NC_002577.1 + 109392 0.67 0.971942
Target:  5'- aGUGU--GCCGGC-UUCGGGucgagCGGg -3'
miRNA:   3'- gUACGagUGGCCGuAAGCCCuua--GCC- -5'
9741 3' -53.1 NC_002577.1 + 163070 0.66 0.977166
Target:  5'- aCAUGCcCGCCGGCcgcgCGGGcgcUCGc -3'
miRNA:   3'- -GUACGaGUGGCCGuaa-GCCCuu-AGCc -5'
9741 3' -53.1 NC_002577.1 + 49755 0.66 0.983608
Target:  5'- uGUGCUCuACa-GCGUgCGGGAAgggCGGu -3'
miRNA:   3'- gUACGAG-UGgcCGUAaGCCCUUa--GCC- -5'
9741 3' -53.1 NC_002577.1 + 147724 0.66 0.981636
Target:  5'- gGUGgagCGUCGGCg--CGGGAAUCGGu -3'
miRNA:   3'- gUACga-GUGGCCGuaaGCCCUUAGCC- -5'
9741 3' -53.1 NC_002577.1 + 66867 0.66 0.983608
Target:  5'- -uUGCUCGCCGGUuguUUCGaacGAcgUGGc -3'
miRNA:   3'- guACGAGUGGCCGu--AAGCc--CUuaGCC- -5'
9741 3' -53.1 NC_002577.1 + 11700 0.7 0.884421
Target:  5'- --aGCcgGCCGGCcugcaGUUCGGGAAgagCGGg -3'
miRNA:   3'- guaCGagUGGCCG-----UAAGCCCUUa--GCC- -5'
9741 3' -53.1 NC_002577.1 + 140200 0.7 0.869995
Target:  5'- --cGCUCGCCGGUGcccUUCcuacuGGGAUCGGc -3'
miRNA:   3'- guaCGAGUGGCCGU---AAGc----CCUUAGCC- -5'
9741 3' -53.1 NC_002577.1 + 139551 0.67 0.968422
Target:  5'- cCGUGCUUuCCGGCGUgcgcgccgccgcCGGGcg-CGGg -3'
miRNA:   3'- -GUACGAGuGGCCGUAa-----------GCCCuuaGCC- -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.