miRNA display CGI


Results 1 - 20 of 57 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
21195 3' -44.4 NC_004778.3 + 29322 0.66 0.999996
Target:  5'- aUCUucGAAGGUGGCGCggCGCgcgcUGGGg -3'
miRNA:   3'- -AGA--UUUCUAUCGUGa-GCGaaaaGCUC- -5'
21195 3' -44.4 NC_004778.3 + 122482 0.66 0.999995
Target:  5'- uUUUGAuacGAUugaaaAGCGCcgaccUCGCUUUUCGGGa -3'
miRNA:   3'- -AGAUUu--CUA-----UCGUG-----AGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 31147 0.66 0.999995
Target:  5'- uUCUGAAGA-AGCGCUggCGCUgacgcaaUUGAGc -3'
miRNA:   3'- -AGAUUUCUaUCGUGA--GCGAaa-----AGCUC- -5'
21195 3' -44.4 NC_004778.3 + 43720 0.66 0.999992
Target:  5'- gUCUGAcGAUGGCgcuaauaACUCGUUgUUCGGc -3'
miRNA:   3'- -AGAUUuCUAUCG-------UGAGCGAaAAGCUc -5'
21195 3' -44.4 NC_004778.3 + 34468 0.67 0.999985
Target:  5'- --cGAGGAgcGCAC-CGCgg-UCGAGa -3'
miRNA:   3'- agaUUUCUauCGUGaGCGaaaAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 19817 0.67 0.999985
Target:  5'- --------cAGCGCcgaccUCGCUUUUCGAGa -3'
miRNA:   3'- agauuucuaUCGUG-----AGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 19917 0.67 0.999985
Target:  5'- --------cGGCGCcgaccUCGCUUUUCGAGa -3'
miRNA:   3'- agauuucuaUCGUG-----AGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 122545 0.67 0.999985
Target:  5'- gCUAuAGAcguGCGucagcgccgacCUCGCUUUUCGGGu -3'
miRNA:   3'- aGAUuUCUau-CGU-----------GAGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 30067 0.67 0.99996
Target:  5'- aUCUuuAGAcguGCGucggcgccgacCUCGCUUUUCGGGc -3'
miRNA:   3'- -AGAuuUCUau-CGU-----------GAGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 19736 0.67 0.99996
Target:  5'- aUCUuuAGAcguGCGucagcgccgacCUCGCUUUUCGGGc -3'
miRNA:   3'- -AGAuuUCUau-CGU-----------GAGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 66544 0.67 0.99996
Target:  5'- aUCUuuAGAcguGCGucagcgccgacCUCGCUUUUCGGGc -3'
miRNA:   3'- -AGAuuUCUau-CGU-----------GAGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 122297 0.68 0.999927
Target:  5'- aUCUuuAGAcguGCGucagcgccgacCUCGCUUUUCGGGu -3'
miRNA:   3'- -AGAuuUCUau-CGU-----------GAGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 90401 0.68 0.999831
Target:  5'- gCUGAAGAUGGCACgcacgcgcaaauUUGCUUgUCGc- -3'
miRNA:   3'- aGAUUUCUAUCGUG------------AGCGAAaAGCuc -5'
21195 3' -44.4 NC_004778.3 + 20022 0.69 0.999717
Target:  5'- aUCUuuGGAcguGCGucggcgccgacCUCGCUUUUCGGGa -3'
miRNA:   3'- -AGAuuUCUau-CGU-----------GAGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 4598 0.69 0.999717
Target:  5'- gUCUGA----GGCAUUCGUUUUUCGGa -3'
miRNA:   3'- -AGAUUucuaUCGUGAGCGAAAAGCUc -5'
21195 3' -44.4 NC_004778.3 + 24298 0.7 0.998625
Target:  5'- gUCUcAAauUGGCAUUCGCUUUaCGAGa -3'
miRNA:   3'- -AGAuUUcuAUCGUGAGCGAAAaGCUC- -5'
21195 3' -44.4 NC_004778.3 + 23902 0.7 0.998625
Target:  5'- gUCUcAAauUGGCAUUCGCUUUaCGAGa -3'
miRNA:   3'- -AGAuUUcuAUCGUGAGCGAAAaGCUC- -5'
21195 3' -44.4 NC_004778.3 + 24099 0.7 0.998625
Target:  5'- gUCUcAAauUGGCAUUCGCUUUaCGAGa -3'
miRNA:   3'- -AGAuUUcuAUCGUGAGCGAAAaGCUC- -5'
21195 3' -44.4 NC_004778.3 + 66610 0.71 0.997965
Target:  5'- aUCUuuAGAcguGCGucagcgccgacCUCGCUUUUCGAGa -3'
miRNA:   3'- -AGAuuUCUau-CGU-----------GAGCGAAAAGCUC- -5'
21195 3' -44.4 NC_004778.3 + 66676 0.71 0.997965
Target:  5'- aUCUuuGGAcguGCGucggcgccgacCUCGCUUUUCGAGa -3'
miRNA:   3'- -AGAuuUCUau-CGU-----------GAGCGAAAAGCUC- -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.