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
16434 3' -53.8 NC_004084.1 + 36464 0.66 0.833554
Target:  5'- aUCUCGGCGgagacgUCG-UCCUGGACg--- -3'
miRNA:   3'- -AGAGCUGCga----AGCaAGGACCUGgacg -5'
16434 3' -53.8 NC_004084.1 + 5311 0.66 0.805867
Target:  5'- aCUCGGCgGCUcCGUcgagugccUCCUGGAggucuUCUGUg -3'
miRNA:   3'- aGAGCUG-CGAaGCA--------AGGACCU-----GGACG- -5'
16434 3' -53.8 NC_004084.1 + 6457 0.66 0.796261
Target:  5'- -gUCGcCGUggagCGggaugUCCUGGACCUcGCc -3'
miRNA:   3'- agAGCuGCGaa--GCa----AGGACCUGGA-CG- -5'
16434 3' -53.8 NC_004084.1 + 40481 0.66 0.796261
Target:  5'- cCUCGaACGCgaCGa-CCUGaucGACCUGCa -3'
miRNA:   3'- aGAGC-UGCGaaGCaaGGAC---CUGGACG- -5'
16434 3' -53.8 NC_004084.1 + 28147 0.67 0.760338
Target:  5'- gUCUCGAUaCUUCGgcuggaauaguccgUCCUcGGCCUGUu -3'
miRNA:   3'- -AGAGCUGcGAAGCa-------------AGGAcCUGGACG- -5'
16434 3' -53.8 NC_004084.1 + 26748 0.67 0.755202
Target:  5'- aUCUCGGCGUacuaccCCUGGgauugacGCCUGCa -3'
miRNA:   3'- -AGAGCUGCGaagcaaGGACC-------UGGACG- -5'
16434 3' -53.8 NC_004084.1 + 51154 0.68 0.735412
Target:  5'- aUCUCGGugucgguguCGCUcUCG-UCCUGGACCc-- -3'
miRNA:   3'- -AGAGCU---------GCGA-AGCaAGGACCUGGacg -5'
16434 3' -53.8 NC_004084.1 + 907 0.68 0.714178
Target:  5'- -gUCGGCGUcgUCGgaguUCgCUGcGGCCUGCu -3'
miRNA:   3'- agAGCUGCGa-AGCa---AG-GAC-CUGGACG- -5'
16434 3' -53.8 NC_004084.1 + 8342 0.68 0.69262
Target:  5'- --cCGGCGCUcaUCGUcUCCgaGGACCaGCu -3'
miRNA:   3'- agaGCUGCGA--AGCA-AGGa-CCUGGaCG- -5'
16434 3' -53.8 NC_004084.1 + 9207 0.68 0.69262
Target:  5'- uUCUgGAUGgaUCccgUCCUGGAugaCCUGCu -3'
miRNA:   3'- -AGAgCUGCgaAGca-AGGACCU---GGACG- -5'
16434 3' -53.8 NC_004084.1 + 39429 0.69 0.648892
Target:  5'- aCUCGAUGCUUCGUUgaUC-GaGACCaGCg -3'
miRNA:   3'- aGAGCUGCGAAGCAA--GGaC-CUGGaCG- -5'
16434 3' -53.8 NC_004084.1 + 36850 0.71 0.550521
Target:  5'- aUCggUGACGaaCUUCGaUUCgaGGACCUGCu -3'
miRNA:   3'- -AGa-GCUGC--GAAGC-AAGgaCCUGGACG- -5'
16434 3' -53.8 NC_004084.1 + 22940 0.71 0.52916
Target:  5'- aUCUCGGCGa-UCGccCCUcGACCUGCu -3'
miRNA:   3'- -AGAGCUGCgaAGCaaGGAcCUGGACG- -5'
16434 3' -53.8 NC_004084.1 + 37134 0.72 0.487425
Target:  5'- uUCUCGACGCggUCGUUCCgUGaucaucgcGACgaGCu -3'
miRNA:   3'- -AGAGCUGCGa-AGCAAGG-AC--------CUGgaCG- -5'
16434 3' -53.8 NC_004084.1 + 50867 0.75 0.347357
Target:  5'- uUCUCGGCGUUcuucUCGaugccgUCCUGGAUggCUGCa -3'
miRNA:   3'- -AGAGCUGCGA----AGCa-----AGGACCUG--GACG- -5'
16434 3' -53.8 NC_004084.1 + 35627 1.13 0.000874
Target:  5'- cUCUCGACGCUUCGUUCCUGGACCUGCa -3'
miRNA:   3'- -AGAGCUGCGAAGCAAGGACCUGGACG- -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.