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
1081 3' -60.1 NC_000929.1 + 21053 0.66 0.373742
Target:  5'- cUGGCcCCGCCAUCGGUauuucuggcaugGaUGG-GCUGUg -3'
miRNA:   3'- -ACUGuGGCGGUGGCCA------------C-GCCaCGACG- -5'
1081 3' -60.1 NC_000929.1 + 22570 0.66 0.373742
Target:  5'- cUGuACGCCGCCACaCuGUGUGccGUUGCc -3'
miRNA:   3'- -AC-UGUGGCGGUG-GcCACGCcaCGACG- -5'
1081 3' -60.1 NC_000929.1 + 24741 0.66 0.373742
Target:  5'- uUGAUACCGUaACCGGUcaGCaGGUuggcauccgccGCUGUg -3'
miRNA:   3'- -ACUGUGGCGgUGGCCA--CG-CCA-----------CGACG- -5'
1081 3' -60.1 NC_000929.1 + 14102 0.66 0.365056
Target:  5'- cGGCGCUgcauuugauGCCACCGGUaacgGCGGUuauCUGg -3'
miRNA:   3'- aCUGUGG---------CGGUGGCCA----CGCCAc--GACg -5'
1081 3' -60.1 NC_000929.1 + 18998 0.67 0.293291
Target:  5'- cGAaaauuCCGUCGCaggaaaaaacggCGGUgGCGGUGCUGUc -3'
miRNA:   3'- aCUgu---GGCGGUG------------GCCA-CGCCACGACG- -5'
1081 3' -60.1 NC_000929.1 + 29567 0.67 0.286034
Target:  5'- cGAcCGCC-CCAUCGGUucGCGGUugugGCUGUu -3'
miRNA:   3'- aCU-GUGGcGGUGGCCA--CGCCA----CGACG- -5'
1081 3' -60.1 NC_000929.1 + 30995 0.68 0.281748
Target:  5'- cGugAUUGCCACUGcG-GCGGaugaugcgcggcaaaUGCUGCg -3'
miRNA:   3'- aCugUGGCGGUGGC-CaCGCC---------------ACGACG- -5'
1081 3' -60.1 NC_000929.1 + 8268 0.68 0.271946
Target:  5'- cGACucaugAUCGUaccuCCGGaaaggggGCGGUGCUGCa -3'
miRNA:   3'- aCUG-----UGGCGgu--GGCCa------CGCCACGACG- -5'
1081 3' -60.1 NC_000929.1 + 7047 0.69 0.221131
Target:  5'- aGACAguCCGCCauaaACUGGUcccacgccaGCaGUGCUGCg -3'
miRNA:   3'- aCUGU--GGCGG----UGGCCA---------CGcCACGACG- -5'
1081 3' -60.1 NC_000929.1 + 22916 0.7 0.198896
Target:  5'- aUGGCACCcgcuuuGCCACCGGUcaggccGUGGUGaC-GCa -3'
miRNA:   3'- -ACUGUGG------CGGUGGCCA------CGCCAC-GaCG- -5'
1081 3' -60.1 NC_000929.1 + 14657 0.7 0.183521
Target:  5'- gUGACGCCGa-ACCGGgccGCGcagaUGCUGCg -3'
miRNA:   3'- -ACUGUGGCggUGGCCa--CGCc---ACGACG- -5'
1081 3' -60.1 NC_000929.1 + 18498 0.7 0.178635
Target:  5'- -aGCACCG-CACCGGUgGCGGUGUc-- -3'
miRNA:   3'- acUGUGGCgGUGGCCA-CGCCACGacg -5'
1081 3' -60.1 NC_000929.1 + 21283 0.75 0.086531
Target:  5'- cGACaACCGUaucaauGCCGGUGUGGUGCUuuacgGCg -3'
miRNA:   3'- aCUG-UGGCGg-----UGGCCACGCCACGA-----CG- -5'
1081 3' -60.1 NC_000929.1 + 11673 0.75 0.084094
Target:  5'- cGAacUACUGCCACUGGUGCcGUGgaGCa -3'
miRNA:   3'- aCU--GUGGCGGUGGCCACGcCACgaCG- -5'
1081 3' -60.1 NC_000929.1 + 11601 0.76 0.068786
Target:  5'- aUGAC-CCGCCuguauuguguGCCGGuUGCGGUcgugaGCUGCg -3'
miRNA:   3'- -ACUGuGGCGG----------UGGCC-ACGCCA-----CGACG- -5'
1081 3' -60.1 NC_000929.1 + 18438 1.12 0.000119
Target:  5'- aUGACACCGCCACCGGUGCGGUGCUGCa -3'
miRNA:   3'- -ACUGUGGCGGUGGCCACGCCACGACG- -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.