miRNA display CGI


Results 1 - 18 of 18 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
16262 5' -52 NC_004084.1 + 202 0.65 0.904086
Target:  5'- gUUCCGgGagcccgcacggccaUCGGCGggGGAg-UCGUCg -3'
miRNA:   3'- aGAGGCgC--------------AGUCGCuuCUUgaAGCAG- -5'
16262 5' -52 NC_004084.1 + 56189 0.66 0.90202
Target:  5'- aUCUCCGCGcuggccgaagcgagCGGCGAGGA-CaUCGa- -3'
miRNA:   3'- -AGAGGCGCa-------------GUCGCUUCUuGaAGCag -5'
16262 5' -52 NC_004084.1 + 50246 0.66 0.90202
Target:  5'- cCUCUGCGUCcucgucgccguuggcGGCGAGGucCUcgaCGUCu -3'
miRNA:   3'- aGAGGCGCAG---------------UCGCUUCuuGAa--GCAG- -5'
16262 5' -52 NC_004084.1 + 36455 0.66 0.899228
Target:  5'- --aCCGUGUCgaucucGGCGGAGAcg-UCGUCc -3'
miRNA:   3'- agaGGCGCAG------UCGCUUCUugaAGCAG- -5'
16262 5' -52 NC_004084.1 + 32622 0.66 0.892053
Target:  5'- aCUCCaGCGau-GCGGAGGACgagacggUCGUUg -3'
miRNA:   3'- aGAGG-CGCaguCGCUUCUUGa------AGCAG- -5'
16262 5' -52 NC_004084.1 + 8813 0.66 0.868913
Target:  5'- aUCUCCGuCGaCGGCGAacucgccaAGuACcUCGUCg -3'
miRNA:   3'- -AGAGGC-GCaGUCGCU--------UCuUGaAGCAG- -5'
16262 5' -52 NC_004084.1 + 20870 0.66 0.868913
Target:  5'- --aCCGCGcCGGCGAuGGAAUcgagCGUCu -3'
miRNA:   3'- agaGGCGCaGUCGCU-UCUUGaa--GCAG- -5'
16262 5' -52 NC_004084.1 + 14374 0.66 0.868102
Target:  5'- aUCUUCGCGcaccucccacUCGGCGAgaucGGGGCgauguucucgaagUUCGUCg -3'
miRNA:   3'- -AGAGGCGC----------AGUCGCU----UCUUG-------------AAGCAG- -5'
16262 5' -52 NC_004084.1 + 48925 0.67 0.860683
Target:  5'- cUUCCG-GUCGGCGccGGGCUUCa-- -3'
miRNA:   3'- aGAGGCgCAGUCGCuuCUUGAAGcag -5'
16262 5' -52 NC_004084.1 + 57249 0.67 0.834543
Target:  5'- --aCCGCGUCGGCGAuGAcGCgaaggUgGUCu -3'
miRNA:   3'- agaGGCGCAGUCGCUuCU-UGa----AgCAG- -5'
16262 5' -52 NC_004084.1 + 51259 0.67 0.834543
Target:  5'- --gCUuCGUCAGCGgcGAACgcugugUCGUCg -3'
miRNA:   3'- agaGGcGCAGUCGCuuCUUGa-----AGCAG- -5'
16262 5' -52 NC_004084.1 + 34848 0.69 0.734743
Target:  5'- gCUCuCGaCGaCAGCGggGAGCgcgauaUCGUCc -3'
miRNA:   3'- aGAG-GC-GCaGUCGCuuCUUGa-----AGCAG- -5'
16262 5' -52 NC_004084.1 + 55539 0.7 0.702184
Target:  5'- cCUCCGCGaUCGcgcuggcuggccGCGAcGAACU-CGUCg -3'
miRNA:   3'- aGAGGCGC-AGU------------CGCUuCUUGAaGCAG- -5'
16262 5' -52 NC_004084.1 + 21874 0.7 0.680104
Target:  5'- --aCUGCGUCAuccgcaucGCGAGGAACUUCa-- -3'
miRNA:   3'- agaGGCGCAGU--------CGCUUCUUGAAGcag -5'
16262 5' -52 NC_004084.1 + 28398 0.72 0.590777
Target:  5'- aUCUUCGCGUCGauGCGAAcgcuGACgUCGUCa -3'
miRNA:   3'- -AGAGGCGCAGU--CGCUUc---UUGaAGCAG- -5'
16262 5' -52 NC_004084.1 + 34996 0.73 0.524977
Target:  5'- cCUgCGUGUCAGCGAucagcuGGGCUcgaguuUCGUCg -3'
miRNA:   3'- aGAgGCGCAGUCGCUu-----CUUGA------AGCAG- -5'
16262 5' -52 NC_004084.1 + 54081 0.74 0.482675
Target:  5'- cCUCgGCGUCGGUGGAGAACgcucCGg- -3'
miRNA:   3'- aGAGgCGCAGUCGCUUCUUGaa--GCag -5'
16262 5' -52 NC_004084.1 + 51898 1.11 0.001641
Target:  5'- uUCUCCGCGUCAGCGAAGAACUUCGUCa -3'
miRNA:   3'- -AGAGGCGCAGUCGCUUCUUGAAGCAG- -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.