miRNA display CGI


Results 1 - 20 of 41 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
6397 3' -54.8 NC_001847.1 + 102102 0.66 0.921342
Target:  5'- ---cGGCCgCGAGCGcGUCCAG--CUCGg -3'
miRNA:   3'- uauuUCGG-GCUCGU-CAGGUCcaGAGC- -5'
6397 3' -54.8 NC_001847.1 + 45455 0.66 0.921342
Target:  5'- --uGGGCCCGcGCAuaccCCGGGUcCUCGg -3'
miRNA:   3'- uauUUCGGGCuCGUca--GGUCCA-GAGC- -5'
6397 3' -54.8 NC_001847.1 + 128781 0.66 0.915502
Target:  5'- -gGGGGCCgCGGGCGGUcagaCCAGGg--CGg -3'
miRNA:   3'- uaUUUCGG-GCUCGUCA----GGUCCagaGC- -5'
6397 3' -54.8 NC_001847.1 + 39524 0.66 0.915502
Target:  5'- ---cGGCCCGccacAGCGGUCCAGaGUggUUCa -3'
miRNA:   3'- uauuUCGGGC----UCGUCAGGUC-CA--GAGc -5'
6397 3' -54.8 NC_001847.1 + 13465 0.66 0.915502
Target:  5'- --cGAGCCCGGGguuuCGGUCgCGGG-CUUGg -3'
miRNA:   3'- uauUUCGGGCUC----GUCAG-GUCCaGAGC- -5'
6397 3' -54.8 NC_001847.1 + 25968 0.66 0.915502
Target:  5'- -gGGGGCCgCGGGCGGUcagaCCAGGg--CGg -3'
miRNA:   3'- uaUUUCGG-GCUCGUCA----GGUCCagaGC- -5'
6397 3' -54.8 NC_001847.1 + 100832 0.66 0.909411
Target:  5'- ---cGGCCCGGGCGGcuccggCCAGGgC-CGg -3'
miRNA:   3'- uauuUCGGGCUCGUCa-----GGUCCaGaGC- -5'
6397 3' -54.8 NC_001847.1 + 132604 0.66 0.903072
Target:  5'- ---cGGCCCGgcGGCGGgagcgccgCCGGGUC-CGa -3'
miRNA:   3'- uauuUCGGGC--UCGUCa-------GGUCCAGaGC- -5'
6397 3' -54.8 NC_001847.1 + 54366 0.66 0.903072
Target:  5'- uAUAAAGgCCGGGUcGUCCcGGUC-CGc -3'
miRNA:   3'- -UAUUUCgGGCUCGuCAGGuCCAGaGC- -5'
6397 3' -54.8 NC_001847.1 + 56748 0.66 0.903072
Target:  5'- ----cGCCCGcAGCGG-CgGGGUcCUCGg -3'
miRNA:   3'- uauuuCGGGC-UCGUCaGgUCCA-GAGC- -5'
6397 3' -54.8 NC_001847.1 + 29791 0.66 0.903072
Target:  5'- ---cGGCCCGgcGGCGGgagcgccgCCGGGUC-CGa -3'
miRNA:   3'- uauuUCGGGC--UCGUCa-------GGUCCAGaGC- -5'
6397 3' -54.8 NC_001847.1 + 100739 0.66 0.896487
Target:  5'- ----uGCgCCGAGCucucggggccggGGUCCAGGUCg-- -3'
miRNA:   3'- uauuuCG-GGCUCG------------UCAGGUCCAGagc -5'
6397 3' -54.8 NC_001847.1 + 101721 0.66 0.896487
Target:  5'- --cGAGCCCuccGAGUccgAGUCCgAGGUgUCGa -3'
miRNA:   3'- uauUUCGGG---CUCG---UCAGG-UCCAgAGC- -5'
6397 3' -54.8 NC_001847.1 + 60015 0.66 0.889658
Target:  5'- ---cGGCCCcGGCGGggcCCGGGccuUCUCGg -3'
miRNA:   3'- uauuUCGGGcUCGUCa--GGUCC---AGAGC- -5'
6397 3' -54.8 NC_001847.1 + 104962 0.67 0.882591
Target:  5'- --cGAGCgCCGGGCg--CCAGGgCUCGg -3'
miRNA:   3'- uauUUCG-GGCUCGucaGGUCCaGAGC- -5'
6397 3' -54.8 NC_001847.1 + 2149 0.67 0.882591
Target:  5'- --cGAGCgCCGGGCg--CCAGGgCUCGg -3'
miRNA:   3'- uauUUCG-GGCUCGucaGGUCCaGAGC- -5'
6397 3' -54.8 NC_001847.1 + 1777 0.67 0.875289
Target:  5'- gAUGAGGCCCGccacGCAGgucCCGGGgauguacucCUCGa -3'
miRNA:   3'- -UAUUUCGGGCu---CGUCa--GGUCCa--------GAGC- -5'
6397 3' -54.8 NC_001847.1 + 130952 0.67 0.875289
Target:  5'- --uGGGCCCGAggacuGCAGcgacgCCGGGUC-CGa -3'
miRNA:   3'- uauUUCGGGCU-----CGUCa----GGUCCAGaGC- -5'
6397 3' -54.8 NC_001847.1 + 28139 0.67 0.875289
Target:  5'- --uGGGCCCGAggacuGCAGcgacgCCGGGUC-CGa -3'
miRNA:   3'- uauUUCGGGCU-----CGUCa----GGUCCAGaGC- -5'
6397 3' -54.8 NC_001847.1 + 58130 0.67 0.860004
Target:  5'- cAUGAGGCCUauguauGGGCAGUUCGGGUg--- -3'
miRNA:   3'- -UAUUUCGGG------CUCGUCAGGUCCAgagc -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.