miRNA display CGI


Results 1 - 20 of 60 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
11904 3' -57.9 NC_003266.2 + 3605 0.66 0.44054
Target:  5'- gUCGGUggacgcaGCUGCCGCCGCAGCuGCu- -3'
miRNA:   3'- -AGUCGgg-----UGGCGGUGGUGUUGuCGuc -5'
11904 3' -57.9 NC_003266.2 + 3710 0.69 0.263039
Target:  5'- --cGCCCAUgGCCAuuCCGCGcacggcgcugGCGGCAGa -3'
miRNA:   3'- aguCGGGUGgCGGU--GGUGU----------UGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 3812 0.69 0.284376
Target:  5'- -aGGCCUcgaGCUggGCCAUCaACAGCAGCAGc -3'
miRNA:   3'- agUCGGG---UGG--CGGUGG-UGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 8102 0.7 0.224285
Target:  5'- -gGGCCagGCCGaCCACCACGAC-GUAGu -3'
miRNA:   3'- agUCGGg-UGGC-GGUGGUGUUGuCGUC- -5'
11904 3' -57.9 NC_003266.2 + 9278 0.66 0.401783
Target:  5'- -nGGCCCccucccCCGCCACCACcGCcugaggaggaAGUAGa -3'
miRNA:   3'- agUCGGGu-----GGCGGUGGUGuUG----------UCGUC- -5'
11904 3' -57.9 NC_003266.2 + 9304 0.68 0.322935
Target:  5'- gUCuGCCCgugCGCCGCCGgCGAC-GCAGg -3'
miRNA:   3'- -AGuCGGGug-GCGGUGGU-GUUGuCGUC- -5'
11904 3' -57.9 NC_003266.2 + 9607 0.68 0.299348
Target:  5'- aCAcCCCACCGCCGCCAgAAgaaaccgugcuCAGCc- -3'
miRNA:   3'- aGUcGGGUGGCGGUGGUgUU-----------GUCGuc -5'
11904 3' -57.9 NC_003266.2 + 9724 0.71 0.206792
Target:  5'- -uGGCCgACCGUCugCGCAucCAGCAa -3'
miRNA:   3'- agUCGGgUGGCGGugGUGUu-GUCGUc -5'
11904 3' -57.9 NC_003266.2 + 10129 0.66 0.430651
Target:  5'- --cGCCaGCCGCCGCCGCAcuuccucauCGGCu- -3'
miRNA:   3'- aguCGGgUGGCGGUGGUGUu--------GUCGuc -5'
11904 3' -57.9 NC_003266.2 + 10160 0.7 0.236634
Target:  5'- --cGCCC-CCGCCACCgaGCGAUGGCc- -3'
miRNA:   3'- aguCGGGuGGCGGUGG--UGUUGUCGuc -5'
11904 3' -57.9 NC_003266.2 + 10772 0.78 0.063655
Target:  5'- gCAGaugcgccCCCACCcuCCACCGCAACAGCAGc -3'
miRNA:   3'- aGUC-------GGGUGGc-GGUGGUGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 10831 0.7 0.23039
Target:  5'- uUCuGCCU-CCGCC-CCAgCAGCAGCAa -3'
miRNA:   3'- -AGuCGGGuGGCGGuGGU-GUUGUCGUc -5'
11904 3' -57.9 NC_003266.2 + 10860 0.72 0.170518
Target:  5'- cCAGCcacuaCCGCCGCgGCCGcCGugAGCGGg -3'
miRNA:   3'- aGUCG-----GGUGGCGgUGGU-GUugUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 10932 0.74 0.128571
Target:  5'- cCGGCCCcgcucACgGCgGCCGCGGCGGUAGu -3'
miRNA:   3'- aGUCGGG-----UGgCGgUGGUGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 11165 0.72 0.165826
Target:  5'- aUCAGCCCugCGCgCGCgCACGugGccGCGGc -3'
miRNA:   3'- -AGUCGGGugGCG-GUG-GUGUugU--CGUC- -5'
11904 3' -57.9 NC_003266.2 + 11591 0.69 0.283643
Target:  5'- cUCAGCaCCgaaaaguugaugGCCGCCAgCuucucggACAGCGGCAGc -3'
miRNA:   3'- -AGUCG-GG------------UGGCGGUgG-------UGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 11777 0.68 0.322935
Target:  5'- cUCAGCUCgcGCCGCCugCugGcgcuuaccgcGCGGCGc -3'
miRNA:   3'- -AGUCGGG--UGGCGGugGugU----------UGUCGUc -5'
11904 3' -57.9 NC_003266.2 + 11836 0.75 0.10211
Target:  5'- gCAGCCCAgCCGCCgggucuuggaaGCCGCGGCGGUc- -3'
miRNA:   3'- aGUCGGGU-GGCGG-----------UGGUGUUGUCGuc -5'
11904 3' -57.9 NC_003266.2 + 12266 0.68 0.339416
Target:  5'- cCAGCCCGgccUCGUCGCCGCgAAUGGCc- -3'
miRNA:   3'- aGUCGGGU---GGCGGUGGUG-UUGUCGuc -5'
11904 3' -57.9 NC_003266.2 + 12721 0.69 0.284376
Target:  5'- gCuGUCCgugaagGgCGCCACCAgCAGCAGCAGc -3'
miRNA:   3'- aGuCGGG------UgGCGGUGGU-GUUGUCGUC- -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.