miRNA display CGI


Results 1 - 16 of 16 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
28044 3' -45.4 NC_005887.1 + 39565 0.66 0.994548
Target:  5'- cCGGAGAGaCUAgGUGugGCG-UGGCGCa -3'
miRNA:   3'- -GUCUUUC-GGUaUACuaUGCuAUCGCG- -5'
28044 3' -45.4 NC_005887.1 + 14710 0.66 0.994548
Target:  5'- gGGcgGGCCGggcGcgGCGAUcGCGCa -3'
miRNA:   3'- gUCuuUCGGUauaCuaUGCUAuCGCG- -5'
28044 3' -45.4 NC_005887.1 + 38941 0.66 0.991103
Target:  5'- --cAAAGCCGcccUGccaGCGGUAGCGCg -3'
miRNA:   3'- gucUUUCGGUau-ACua-UGCUAUCGCG- -5'
28044 3' -45.4 NC_005887.1 + 22235 0.66 0.991103
Target:  5'- -uGAucGUCGcGUGGUucacgaucagcgACGGUGGCGCg -3'
miRNA:   3'- guCUuuCGGUaUACUA------------UGCUAUCGCG- -5'
28044 3' -45.4 NC_005887.1 + 7665 0.67 0.987981
Target:  5'- gCAGGugaaagcaaucAAGCCGg--GGUucuuCGGUGGCGCc -3'
miRNA:   3'- -GUCU-----------UUCGGUauaCUAu---GCUAUCGCG- -5'
28044 3' -45.4 NC_005887.1 + 24907 0.67 0.987981
Target:  5'- uCGGAuucGGGCCGUAgcgcuCGAcgAGCGCg -3'
miRNA:   3'- -GUCU---UUCGGUAUacuauGCUa-UCGCG- -5'
28044 3' -45.4 NC_005887.1 + 13361 0.67 0.981789
Target:  5'- aGGAaaaGAGCCcg-----GCGAUGGCGCu -3'
miRNA:   3'- gUCU---UUCGGuauacuaUGCUAUCGCG- -5'
28044 3' -45.4 NC_005887.1 + 10540 0.67 0.981789
Target:  5'- aAGAAGGgCAUGaGGUugGAUgcGGCGg -3'
miRNA:   3'- gUCUUUCgGUAUaCUAugCUA--UCGCg -5'
28044 3' -45.4 NC_005887.1 + 41161 0.68 0.979268
Target:  5'- cCAGAAAGCCGcaAUGGUGuCGAacaugauccgccUGGCuGCa -3'
miRNA:   3'- -GUCUUUCGGUa-UACUAU-GCU------------AUCG-CG- -5'
28044 3' -45.4 NC_005887.1 + 19672 0.68 0.976205
Target:  5'- gGGAucGCUAgcgAUGGUGugacgcugcaguuCGAUAGCGUg -3'
miRNA:   3'- gUCUuuCGGUa--UACUAU-------------GCUAUCGCG- -5'
28044 3' -45.4 NC_005887.1 + 21008 0.68 0.970155
Target:  5'- aAGuuGAGUCGUGUucguaccggccGAUGCGGUcGGCGCg -3'
miRNA:   3'- gUCu-UUCGGUAUA-----------CUAUGCUA-UCGCG- -5'
28044 3' -45.4 NC_005887.1 + 6952 0.69 0.962676
Target:  5'- -cGAAGGCCGU-----GCGcgGGCGCa -3'
miRNA:   3'- guCUUUCGGUAuacuaUGCuaUCGCG- -5'
28044 3' -45.4 NC_005887.1 + 361 0.7 0.938538
Target:  5'- uGGGccgcAGGCCGUGcugcUGAUAgGcgAGCGCg -3'
miRNA:   3'- gUCU----UUCGGUAU----ACUAUgCuaUCGCG- -5'
28044 3' -45.4 NC_005887.1 + 23958 0.71 0.906166
Target:  5'- gCGGcguAGGCCAUcgGGUucGCGAgcgccGGCGCg -3'
miRNA:   3'- -GUCu--UUCGGUAuaCUA--UGCUa----UCGCG- -5'
28044 3' -45.4 NC_005887.1 + 9461 0.72 0.874372
Target:  5'- cCAGguGGUCAcg-GGUACGGUGGCGa -3'
miRNA:   3'- -GUCuuUCGGUauaCUAUGCUAUCGCg -5'
28044 3' -45.4 NC_005887.1 + 18486 1.14 0.003862
Target:  5'- cCAGAAAGCCAUAUGAUACGAUAGCGCu -3'
miRNA:   3'- -GUCUUUCGGUAUACUAUGCUAUCGCG- -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.