miRNA display CGI


Results 1 - 20 of 244 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
28047 3' -64.2 NC_005887.1 + 32666 0.66 0.260527
Target:  5'- aCCGGugucGCGCGUGcGCGcuUCGGCaaCCGCg -3'
miRNA:   3'- -GGCU----CGCGCGC-CGU--AGCCGgcGGCGg -5'
28047 3' -64.2 NC_005887.1 + 12657 0.66 0.248105
Target:  5'- aCGAGUGgGuCGGCgAUUuGCCGCCGaCg -3'
miRNA:   3'- gGCUCGCgC-GCCG-UAGcCGGCGGCgG- -5'
28047 3' -64.2 NC_005887.1 + 17272 0.66 0.280104
Target:  5'- gCCGGGCGagacgucggGCGGCGcCGcGCgCGCaaaCGCCg -3'
miRNA:   3'- -GGCUCGCg--------CGCCGUaGC-CG-GCG---GCGG- -5'
28047 3' -64.2 NC_005887.1 + 12539 0.66 0.266926
Target:  5'- gCCGAcaacuucaagGa-CGUGGCGUcgaCGGCCGCCGgCa -3'
miRNA:   3'- -GGCU----------CgcGCGCCGUA---GCCGGCGGCgG- -5'
28047 3' -64.2 NC_005887.1 + 41941 0.66 0.278094
Target:  5'- gCUGAGCugcccggcgugcucGCGUGGUgcgugcgCGGCgCGCuCGCCu -3'
miRNA:   3'- -GGCUCG--------------CGCGCCGua-----GCCG-GCG-GCGG- -5'
28047 3' -64.2 NC_005887.1 + 4280 0.66 0.264993
Target:  5'- cCCGAugaucGCGCGCGaggucgacauccucGCcgaggcCGGCCaGCUGCCg -3'
miRNA:   3'- -GGCU-----CGCGCGC--------------CGua----GCCGG-CGGCGG- -5'
28047 3' -64.2 NC_005887.1 + 27990 0.66 0.266926
Target:  5'- cUCGGGCcgaauCGCGuCGUCGGCCGgCGUUu -3'
miRNA:   3'- -GGCUCGc----GCGCcGUAGCCGGCgGCGG- -5'
28047 3' -64.2 NC_005887.1 + 14600 0.66 0.273451
Target:  5'- gUCGGuacGCGUaCGGcCGUCGG-CGCCGUCg -3'
miRNA:   3'- -GGCU---CGCGcGCC-GUAGCCgGCGGCGG- -5'
28047 3' -64.2 NC_005887.1 + 11323 0.66 0.260527
Target:  5'- gCGAGCGcCGCaaccGCGaCGGCCGguaCGCUg -3'
miRNA:   3'- gGCUCGC-GCGc---CGUaGCCGGCg--GCGG- -5'
28047 3' -64.2 NC_005887.1 + 33196 0.66 0.27148
Target:  5'- aCGAGCccguccagaugaacGCGCcgcacuGGCAcUCGGUCG-CGCCg -3'
miRNA:   3'- gGCUCG--------------CGCG------CCGU-AGCCGGCgGCGG- -5'
28047 3' -64.2 NC_005887.1 + 24539 0.66 0.280104
Target:  5'- ----aCGCGCGGCcgcaccuUCGGCCgGgCGCCc -3'
miRNA:   3'- ggcucGCGCGCCGu------AGCCGG-CgGCGG- -5'
28047 3' -64.2 NC_005887.1 + 18377 0.66 0.266926
Target:  5'- aCG-GCGCGcCGGCGcUCgcgaacccgauGGCCuaCGCCg -3'
miRNA:   3'- gGCuCGCGC-GCCGU-AG-----------CCGGcgGCGG- -5'
28047 3' -64.2 NC_005887.1 + 38165 0.66 0.280104
Target:  5'- gCCGAGCGCGaaauaGGCGgugugcagcaUGGCCgGCUcaauacccgaGCCa -3'
miRNA:   3'- -GGCUCGCGCg----CCGUa---------GCCGG-CGG----------CGG- -5'
28047 3' -64.2 NC_005887.1 + 40355 0.66 0.266926
Target:  5'- gCCGucgaGCGCGGC--CGuGCCGCuCGUCg -3'
miRNA:   3'- -GGCucg-CGCGCCGuaGC-CGGCG-GCGG- -5'
28047 3' -64.2 NC_005887.1 + 13897 0.66 0.266926
Target:  5'- cUCGuGCGCGuCGGCAUucgUGGCaCGUaCGCg -3'
miRNA:   3'- -GGCuCGCGC-GCCGUA---GCCG-GCG-GCGg -5'
28047 3' -64.2 NC_005887.1 + 13134 0.66 0.273451
Target:  5'- cUCGAGCGUGCcgGGCcUCGuCuCGUCGCUu -3'
miRNA:   3'- -GGCUCGCGCG--CCGuAGCcG-GCGGCGG- -5'
28047 3' -64.2 NC_005887.1 + 42080 0.66 0.254254
Target:  5'- aCGAGCGCuGUcGCGUgGGgCGCgaUGCCg -3'
miRNA:   3'- gGCUCGCG-CGcCGUAgCCgGCG--GCGG- -5'
28047 3' -64.2 NC_005887.1 + 5289 0.66 0.260527
Target:  5'- cCCGAgcaGCGCGCGGCGaaGuuCuaCGCCa -3'
miRNA:   3'- -GGCU---CGCGCGCCGUagCcgGcgGCGG- -5'
28047 3' -64.2 NC_005887.1 + 8501 0.66 0.266926
Target:  5'- cUCGAGUcgcguaacgGCGUGGCGUuccCGGgCGaaaCGCCg -3'
miRNA:   3'- -GGCUCG---------CGCGCCGUA---GCCgGCg--GCGG- -5'
28047 3' -64.2 NC_005887.1 + 22957 0.66 0.258632
Target:  5'- aCCGAuacgcucugcggcaGCuGCGCGaGCAU-GGCgCGuuGCCg -3'
miRNA:   3'- -GGCU--------------CG-CGCGC-CGUAgCCG-GCggCGG- -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.