miRNA display CGI


Results 1 - 20 of 40 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
30469 3' -58.2 NC_006548.1 + 31733 0.66 0.429818
Target:  5'- -cGAAcGGCAGCCacucggGCGaggGGCCGCCAu -3'
miRNA:   3'- gaCUUaCCGUCGG------CGUgg-UCGGUGGU- -5'
30469 3' -58.2 NC_006548.1 + 28144 0.66 0.429818
Target:  5'- uUGAGUucGGCcugcaGGCC--GCCAGCCGCCu -3'
miRNA:   3'- gACUUA--CCG-----UCGGcgUGGUCGGUGGu -5'
30469 3' -58.2 NC_006548.1 + 20508 0.66 0.420082
Target:  5'- -aGAA-GGCGucgacGCCGCAgCAGCCucuGCCGc -3'
miRNA:   3'- gaCUUaCCGU-----CGGCGUgGUCGG---UGGU- -5'
30469 3' -58.2 NC_006548.1 + 17217 0.66 0.420082
Target:  5'- -cGAGUGGaacuuccCCgGCGCgCAGCCGCCAc -3'
miRNA:   3'- gaCUUACCguc----GG-CGUG-GUCGGUGGU- -5'
30469 3' -58.2 NC_006548.1 + 14384 0.66 0.420082
Target:  5'- gCUGGAgcggcggcUGGCGGCaauuCGUGCCAG-CACCGa -3'
miRNA:   3'- -GACUU--------ACCGUCG----GCGUGGUCgGUGGU- -5'
30469 3' -58.2 NC_006548.1 + 21248 0.66 0.410482
Target:  5'- cCUGGGcGGCcaGGCCGUcCgAGCUGCCAu -3'
miRNA:   3'- -GACUUaCCG--UCGGCGuGgUCGGUGGU- -5'
30469 3' -58.2 NC_006548.1 + 20852 0.66 0.410482
Target:  5'- uCUGGcgcGGCAGCagGCgGCCGGCCuugACCAg -3'
miRNA:   3'- -GACUua-CCGUCGg-CG-UGGUCGG---UGGU- -5'
30469 3' -58.2 NC_006548.1 + 13814 0.66 0.410482
Target:  5'- aCUGGAUcGGCAGCUcCGCCuucaGGCuCAUCAg -3'
miRNA:   3'- -GACUUA-CCGUCGGcGUGG----UCG-GUGGU- -5'
30469 3' -58.2 NC_006548.1 + 3605 0.66 0.410482
Target:  5'- -aGGua-GCAGCCaGCGCCAGuUCACCGc -3'
miRNA:   3'- gaCUuacCGUCGG-CGUGGUC-GGUGGU- -5'
30469 3' -58.2 NC_006548.1 + 22500 0.66 0.401019
Target:  5'- -aGGAcaaaGCGGCUGCACCuGCCgcACCAa -3'
miRNA:   3'- gaCUUac--CGUCGGCGUGGuCGG--UGGU- -5'
30469 3' -58.2 NC_006548.1 + 24525 0.66 0.401019
Target:  5'- --uAGUGGCGgucuuGCCGCGCUgcaAGCgGCCAu -3'
miRNA:   3'- gacUUACCGU-----CGGCGUGG---UCGgUGGU- -5'
30469 3' -58.2 NC_006548.1 + 6940 0.66 0.401019
Target:  5'- ----uUGGC-GCCGgaGCCGGUCACCGa -3'
miRNA:   3'- gacuuACCGuCGGCg-UGGUCGGUGGU- -5'
30469 3' -58.2 NC_006548.1 + 32841 0.66 0.389849
Target:  5'- gCUGGAUguccggccacaccGGCAGCgcccagauccgccCGCcCCAGCCugCAa -3'
miRNA:   3'- -GACUUA-------------CCGUCG-------------GCGuGGUCGGugGU- -5'
30469 3' -58.2 NC_006548.1 + 21174 0.67 0.382516
Target:  5'- gUGAuccAUGGCAGCUcggacgGC-CUGGCCGCCc -3'
miRNA:   3'- gACU---UACCGUCGG------CGuGGUCGGUGGu -5'
30469 3' -58.2 NC_006548.1 + 22499 0.67 0.382516
Target:  5'- -cGAggGGCGGCCagAgCGGCCGCCc -3'
miRNA:   3'- gaCUuaCCGUCGGcgUgGUCGGUGGu -5'
30469 3' -58.2 NC_006548.1 + 36731 0.67 0.364589
Target:  5'- gUGAAgcuGCugAGCCGCACCAGCuCGgCGa -3'
miRNA:   3'- gACUUac-CG--UCGGCGUGGUCG-GUgGU- -5'
30469 3' -58.2 NC_006548.1 + 16726 0.67 0.364589
Target:  5'- -gGggUGaGCAGgCGCA--GGCCGCCGu -3'
miRNA:   3'- gaCuuAC-CGUCgGCGUggUCGGUGGU- -5'
30469 3' -58.2 NC_006548.1 + 36368 0.67 0.347252
Target:  5'- uCUGGcu-GCAGCUGCGCCAGaUCugCAu -3'
miRNA:   3'- -GACUuacCGUCGGCGUGGUC-GGugGU- -5'
30469 3' -58.2 NC_006548.1 + 27790 0.67 0.338807
Target:  5'- -cGAA-GGC-GUCGCcUCGGCCACCAc -3'
miRNA:   3'- gaCUUaCCGuCGGCGuGGUCGGUGGU- -5'
30469 3' -58.2 NC_006548.1 + 26423 0.68 0.333812
Target:  5'- gUGAggugGUGGCGGuuCCGUAgcucuggccaucgacCCGGCCGCCGa -3'
miRNA:   3'- gACU----UACCGUC--GGCGU---------------GGUCGGUGGU- -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.