miRNA display CGI


Results 1 - 17 of 17 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
12290 5' -54.2 NC_003313.1 + 4923 0.66 0.562205
Target:  5'- cGC-CAC-GCU-GCCGCAuguGCcCGCCg -3'
miRNA:   3'- uCGaGUGaCGAuCGGCGUu--UGuGCGG- -5'
12290 5' -54.2 NC_003313.1 + 17646 0.67 0.550801
Target:  5'- gAGCUgcCGCUGCUggGGUgGCuAAUACuGCCa -3'
miRNA:   3'- -UCGA--GUGACGA--UCGgCGuUUGUG-CGG- -5'
12290 5' -54.2 NC_003313.1 + 17609 0.67 0.539469
Target:  5'- cAGCUCAUgccGCU-GCUGCGGAaa-GCCu -3'
miRNA:   3'- -UCGAGUGa--CGAuCGGCGUUUgugCGG- -5'
12290 5' -54.2 NC_003313.1 + 21885 0.67 0.515941
Target:  5'- gGGUgUCACUGCccUAGUCGCcaauauuuggcauAAACGCGCg -3'
miRNA:   3'- -UCG-AGUGACG--AUCGGCG-------------UUUGUGCGg -5'
12290 5' -54.2 NC_003313.1 + 16273 0.67 0.503782
Target:  5'- aAGCUCGuuUUGCuUAGUCGCAAuaccguuaauaGCGCCc -3'
miRNA:   3'- -UCGAGU--GACG-AUCGGCGUUug---------UGCGG- -5'
12290 5' -54.2 NC_003313.1 + 4379 0.68 0.495018
Target:  5'- uGCUCAaucCUGCacAGCCGCAcaAACugaGCCc -3'
miRNA:   3'- uCGAGU---GACGa-UCGGCGU--UUGug-CGG- -5'
12290 5' -54.2 NC_003313.1 + 19711 0.68 0.495018
Target:  5'- cGGCUCauuuuGCUGCUuggcuuGCCGCuuuCugGCg -3'
miRNA:   3'- -UCGAG-----UGACGAu-----CGGCGuuuGugCGg -5'
12290 5' -54.2 NC_003313.1 + 21258 0.68 0.4628
Target:  5'- cAGCUCACuuUGCcgucgguaUAGCCauCGGugACGCCg -3'
miRNA:   3'- -UCGAGUG--ACG--------AUCGGc-GUUugUGCGG- -5'
12290 5' -54.2 NC_003313.1 + 4660 0.68 0.452307
Target:  5'- cGCUUACgGCUGcGCgGCAAACGCuCUg -3'
miRNA:   3'- uCGAGUGaCGAU-CGgCGUUUGUGcGG- -5'
12290 5' -54.2 NC_003313.1 + 32860 0.69 0.40189
Target:  5'- cGCUUgguuugguGCUGCggUGGCUGCAGGucccgccauCACGCCg -3'
miRNA:   3'- uCGAG--------UGACG--AUCGGCGUUU---------GUGCGG- -5'
12290 5' -54.2 NC_003313.1 + 18562 0.69 0.40189
Target:  5'- aAGUacaUCGCUGCaGGCCaugccagcgcaGCAGACGUGCCa -3'
miRNA:   3'- -UCG---AGUGACGaUCGG-----------CGUUUGUGCGG- -5'
12290 5' -54.2 NC_003313.1 + 9277 0.69 0.391285
Target:  5'- uGCgagUUGCcgAGCCGCAucacgauGGCACGCCa -3'
miRNA:   3'- uCGaguGACGa-UCGGCGU-------UUGUGCGG- -5'
12290 5' -54.2 NC_003313.1 + 23938 0.71 0.329063
Target:  5'- uGCUCGCUGCU-GCaacaaaGCAGAUACuGCa -3'
miRNA:   3'- uCGAGUGACGAuCGg-----CGUUUGUG-CGg -5'
12290 5' -54.2 NC_003313.1 + 24193 0.71 0.320675
Target:  5'- uGGCgauacCUGCUgcGGUCGCGuuCGCGCCa -3'
miRNA:   3'- -UCGagu--GACGA--UCGGCGUuuGUGCGG- -5'
12290 5' -54.2 NC_003313.1 + 25879 0.73 0.232443
Target:  5'- cGCaCACUGCUAGCaggGCAuguCAUGCCc -3'
miRNA:   3'- uCGaGUGACGAUCGg--CGUuu-GUGCGG- -5'
12290 5' -54.2 NC_003313.1 + 18430 0.74 0.20793
Target:  5'- aAGCUgGugUUGCUGGCUGUGAACAUGCg -3'
miRNA:   3'- -UCGAgU--GACGAUCGGCGUUUGUGCGg -5'
12290 5' -54.2 NC_003313.1 + 8617 1.13 0.000295
Target:  5'- cAGCUCACUGCUAGCCGCAAACACGCCg -3'
miRNA:   3'- -UCGAGUGACGAUCGGCGUUUGUGCGG- -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.