miRNA display CGI


Results 1 - 20 of 49 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
25590 3' -56.2 NC_005337.1 + 108229 0.66 0.876693
Target:  5'- -uGCgagCCGCGCUCGCCgGAGUUcGUgaGc -3'
miRNA:   3'- cuUGa--GGCGCGAGCGG-UUCGA-CAgaC- -5'
25590 3' -56.2 NC_005337.1 + 123596 0.66 0.875228
Target:  5'- cGAGCUgcggccgcacgugCCGCGCUCGCgGGuGCUGacgcucguggagcUCUGc -3'
miRNA:   3'- -CUUGA-------------GGCGCGAGCGgUU-CGAC-------------AGAC- -5'
25590 3' -56.2 NC_005337.1 + 65716 0.66 0.869278
Target:  5'- cGAGCUCCGCGCcaUgGCgAAagcGCUGUUcaUGg -3'
miRNA:   3'- -CUUGAGGCGCG--AgCGgUU---CGACAG--AC- -5'
25590 3' -56.2 NC_005337.1 + 71509 0.66 0.861643
Target:  5'- cGACUUCGCGUuccaccgccgcgUCGCgGAGCUGgUCg- -3'
miRNA:   3'- cUUGAGGCGCG------------AGCGgUUCGAC-AGac -5'
25590 3' -56.2 NC_005337.1 + 86202 0.66 0.861643
Target:  5'- uGAACUCCGgGCUCuGCacggaGAGCacggcGUCUa -3'
miRNA:   3'- -CUUGAGGCgCGAG-CGg----UUCGa----CAGAc -5'
25590 3' -56.2 NC_005337.1 + 114999 0.66 0.853793
Target:  5'- gGAACaCgGCGCUCGCCAaaGGCUaccacgacGUgCUGg -3'
miRNA:   3'- -CUUGaGgCGCGAGCGGU--UCGA--------CA-GAC- -5'
25590 3' -56.2 NC_005337.1 + 85637 0.66 0.845736
Target:  5'- cAGCUgCGCGCUggcgucCGCCGAGCacaUGUuCUGc -3'
miRNA:   3'- cUUGAgGCGCGA------GCGGUUCG---ACA-GAC- -5'
25590 3' -56.2 NC_005337.1 + 117176 0.66 0.845736
Target:  5'- -cGCUCCucGCGUUCGCCAuggaagAGCUGg--- -3'
miRNA:   3'- cuUGAGG--CGCGAGCGGU------UCGACagac -5'
25590 3' -56.2 NC_005337.1 + 130769 0.66 0.844919
Target:  5'- uGGACUUCGCGCagaccugggCGCCGccggugcGGCUG-CUGc -3'
miRNA:   3'- -CUUGAGGCGCGa--------GCGGU-------UCGACaGAC- -5'
25590 3' -56.2 NC_005337.1 + 112663 0.66 0.837478
Target:  5'- gGAACUCCGCGCgcaugaaGuCCAGGUugcgGUCg- -3'
miRNA:   3'- -CUUGAGGCGCGag-----C-GGUUCGa---CAGac -5'
25590 3' -56.2 NC_005337.1 + 50191 0.66 0.837478
Target:  5'- cGugUCCGCGCUCuGCgGcGCgcGUCUGc -3'
miRNA:   3'- cUugAGGCGCGAG-CGgUuCGa-CAGAC- -5'
25590 3' -56.2 NC_005337.1 + 133456 0.66 0.834121
Target:  5'- cGGGC-CCGCGCgcgcggacggcucCGCgGAGCUGgUCUGc -3'
miRNA:   3'- -CUUGaGGCGCGa------------GCGgUUCGAC-AGAC- -5'
25590 3' -56.2 NC_005337.1 + 133456 0.66 0.834121
Target:  5'- cGGGC-CCGCGCgcgcggacggcucCGCgGAGCUGgUCUGc -3'
miRNA:   3'- -CUUGaGGCGCGa------------GCGgUUCGAC-AGAC- -5'
25590 3' -56.2 NC_005337.1 + 60869 0.67 0.829027
Target:  5'- gGAACUCCGaCGCgcguccggcguuUCGUCGGGCgUGUgUGc -3'
miRNA:   3'- -CUUGAGGC-GCG------------AGCGGUUCG-ACAgAC- -5'
25590 3' -56.2 NC_005337.1 + 11370 0.67 0.829027
Target:  5'- --cCUCgagCGCGCUCGCCAucGGCgggCUGa -3'
miRNA:   3'- cuuGAG---GCGCGAGCGGU--UCGacaGAC- -5'
25590 3' -56.2 NC_005337.1 + 55026 0.67 0.820391
Target:  5'- cGACUUCGUGCUgGCCuucguggagcGGCUG-CUGg -3'
miRNA:   3'- cUUGAGGCGCGAgCGGu---------UCGACaGAC- -5'
25590 3' -56.2 NC_005337.1 + 54778 0.67 0.811578
Target:  5'- cAugUCCaaGCUCGCCAAGgaGUUc- -3'
miRNA:   3'- cUugAGGcgCGAGCGGUUCgaCAGac -5'
25590 3' -56.2 NC_005337.1 + 43329 0.67 0.811578
Target:  5'- -uGCUCgGgGCUCGCCGAcGCg--CUGg -3'
miRNA:   3'- cuUGAGgCgCGAGCGGUU-CGacaGAC- -5'
25590 3' -56.2 NC_005337.1 + 11022 0.67 0.811578
Target:  5'- aGGGCUCCGUGaugaacaugUgGCCGgcgggcAGCUGUCUGc -3'
miRNA:   3'- -CUUGAGGCGCg--------AgCGGU------UCGACAGAC- -5'
25590 3' -56.2 NC_005337.1 + 14454 0.67 0.802596
Target:  5'- cGAGCgCCGCGCU-GCCAcccuGCUGUgUa -3'
miRNA:   3'- -CUUGaGGCGCGAgCGGUu---CGACAgAc -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.