miRNA display CGI


Results 1 - 18 of 18 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
22356 3' -58.6 NC_005045.1 + 4130 0.66 0.416059
Target:  5'- aGCAGGCGCcugccagcaGGCcgaGGCAGCAGuacAGg -3'
miRNA:   3'- aUGUCCGCGa--------CCGcg-UCGUCGUCu--UC- -5'
22356 3' -58.6 NC_005045.1 + 38904 0.66 0.406504
Target:  5'- aUGCGGGC-CUcggGGCGCAGguacgcCAGCAGGu- -3'
miRNA:   3'- -AUGUCCGcGA---CCGCGUC------GUCGUCUuc -5'
22356 3' -58.6 NC_005045.1 + 26039 0.66 0.406504
Target:  5'- -cCAGG-GCUGGUcgguauGCAGCAGguGGGc -3'
miRNA:   3'- auGUCCgCGACCG------CGUCGUCguCUUc -5'
22356 3' -58.6 NC_005045.1 + 7049 0.66 0.37868
Target:  5'- cGCgAGGCGaaCUGGC-CAGCAGgAGAGc -3'
miRNA:   3'- aUG-UCCGC--GACCGcGUCGUCgUCUUc -5'
22356 3' -58.6 NC_005045.1 + 6203 0.66 0.37868
Target:  5'- aGCGGGCGaaGGCGgCGGCuaaggacaccuGGCAGGc- -3'
miRNA:   3'- aUGUCCGCgaCCGC-GUCG-----------UCGUCUuc -5'
22356 3' -58.6 NC_005045.1 + 30736 0.66 0.369695
Target:  5'- --uGGcGCGCUGuCGCGGCGGCuGAAc -3'
miRNA:   3'- augUC-CGCGACcGCGUCGUCGuCUUc -5'
22356 3' -58.6 NC_005045.1 + 34821 0.67 0.360855
Target:  5'- aGguGGCGC-GG-GCGGC-GCAGggGg -3'
miRNA:   3'- aUguCCGCGaCCgCGUCGuCGUCuuC- -5'
22356 3' -58.6 NC_005045.1 + 2678 0.67 0.343623
Target:  5'- aGCAGGUGCUccaGGCGCAGaccaagggcaAGguGAu- -3'
miRNA:   3'- aUGUCCGCGA---CCGCGUCg---------UCguCUuc -5'
22356 3' -58.6 NC_005045.1 + 8252 0.67 0.318902
Target:  5'- cGCAGGCGCUGcGCGaacugaucaAGCuGC-GAGGu -3'
miRNA:   3'- aUGUCCGCGAC-CGCg--------UCGuCGuCUUC- -5'
22356 3' -58.6 NC_005045.1 + 41289 0.67 0.318902
Target:  5'- aGCGGGCGCcGGgGCGGUuGCAcAGGc -3'
miRNA:   3'- aUGUCCGCGaCCgCGUCGuCGUcUUC- -5'
22356 3' -58.6 NC_005045.1 + 36851 0.68 0.310964
Target:  5'- gUGCAGGUGCUGGCGgaCGGUuccGuCAGGAc -3'
miRNA:   3'- -AUGUCCGCGACCGC--GUCGu--C-GUCUUc -5'
22356 3' -58.6 NC_005045.1 + 715 0.68 0.310964
Target:  5'- aGCAGGCGagggagUGGCGaggcaAGaCAGCAGGAc -3'
miRNA:   3'- aUGUCCGCg-----ACCGCg----UC-GUCGUCUUc -5'
22356 3' -58.6 NC_005045.1 + 4751 0.68 0.288055
Target:  5'- aGCuuGGCGCccGGgGUAGCAGCGGuGGu -3'
miRNA:   3'- aUGu-CCGCGa-CCgCGUCGUCGUCuUC- -5'
22356 3' -58.6 NC_005045.1 + 23022 0.68 0.273532
Target:  5'- cUACAGGCagaGGCGgAGCAGCAGc-- -3'
miRNA:   3'- -AUGUCCGcgaCCGCgUCGUCGUCuuc -5'
22356 3' -58.6 NC_005045.1 + 23262 0.69 0.252858
Target:  5'- -uCGGG-GUcGGCGCGGCAGCcGggGg -3'
miRNA:   3'- auGUCCgCGaCCGCGUCGUCGuCuuC- -5'
22356 3' -58.6 NC_005045.1 + 4877 0.69 0.252858
Target:  5'- gACAGGCGCUcGGCGguuuGCAGgGcGAGGa -3'
miRNA:   3'- aUGUCCGCGA-CCGCgu--CGUCgU-CUUC- -5'
22356 3' -58.6 NC_005045.1 + 32225 0.73 0.142032
Target:  5'- gUGCucuuGGCGCUGGCGUGGguGCucugcuGggGu -3'
miRNA:   3'- -AUGu---CCGCGACCGCGUCguCGu-----CuuC- -5'
22356 3' -58.6 NC_005045.1 + 29302 1.07 0.000305
Target:  5'- cUACAGGCGCUGGCGCAGCAGCAGAAGg -3'
miRNA:   3'- -AUGUCCGCGACCGCGUCGUCGUCUUC- -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.