miRNA display CGI


Results 1 - 20 of 35 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
19161 3' -56.5 NC_004684.1 + 37534 0.66 0.743329
Target:  5'- -aGCUGCgcgaUGGUgaCCGGCGCGUUg- -3'
miRNA:   3'- caUGAUGaag-GCCG--GGCCGCGCAAgg -5'
19161 3' -56.5 NC_004684.1 + 63910 0.66 0.733116
Target:  5'- -gGCcACggUgCGGCCCGGCGUGg--- -3'
miRNA:   3'- caUGaUGa-AgGCCGGGCCGCGCaagg -5'
19161 3' -56.5 NC_004684.1 + 20822 0.66 0.733116
Target:  5'- -aGCgcgACUgggaaUCCGGCaccaagcgcaCCGGCGuCGUUCUu -3'
miRNA:   3'- caUGa--UGA-----AGGCCG----------GGCCGC-GCAAGG- -5'
19161 3' -56.5 NC_004684.1 + 55943 0.66 0.733116
Target:  5'- cGUGgUGCgcgUCGGCCCGGUcaGC--UCCg -3'
miRNA:   3'- -CAUgAUGaa-GGCCGGGCCG--CGcaAGG- -5'
19161 3' -56.5 NC_004684.1 + 66913 0.66 0.712413
Target:  5'- gGUGCUGCcgaccucgCUGGCCCGGUug--UCCa -3'
miRNA:   3'- -CAUGAUGaa------GGCCGGGCCGcgcaAGG- -5'
19161 3' -56.5 NC_004684.1 + 54408 0.66 0.712413
Target:  5'- --------cCCGGCCCGGCGCucgGUguugCCu -3'
miRNA:   3'- caugaugaaGGCCGGGCCGCG---CAa---GG- -5'
19161 3' -56.5 NC_004684.1 + 16200 0.66 0.701944
Target:  5'- uGUACggccaggGCgcgcggUCCauGGCCCGGCGCaucggCCa -3'
miRNA:   3'- -CAUGa------UGa-----AGG--CCGGGCCGCGcaa--GG- -5'
19161 3' -56.5 NC_004684.1 + 5452 0.66 0.701944
Target:  5'- gGUGC-ACca--GGCCCGGCGgGUgCCg -3'
miRNA:   3'- -CAUGaUGaaggCCGGGCCGCgCAaGG- -5'
19161 3' -56.5 NC_004684.1 + 65520 0.66 0.695631
Target:  5'- -cGCUGgaucCUUCggccagguggauaugCGGCCCGGCGUuggUCCg -3'
miRNA:   3'- caUGAU----GAAG---------------GCCGGGCCGCGca-AGG- -5'
19161 3' -56.5 NC_004684.1 + 38674 0.66 0.69141
Target:  5'- --cCUGa-UCCaGGUCCGGCGCGgcUCCc -3'
miRNA:   3'- cauGAUgaAGG-CCGGGCCGCGCa-AGG- -5'
19161 3' -56.5 NC_004684.1 + 34697 0.67 0.680823
Target:  5'- -cGCggaACUUCCGGCUCG-UGUGgUCCg -3'
miRNA:   3'- caUGa--UGAAGGCCGGGCcGCGCaAGG- -5'
19161 3' -56.5 NC_004684.1 + 65928 0.67 0.670192
Target:  5'- -gGC-ACgUCCGGCCCGGUcucgaccagGUGgUCCa -3'
miRNA:   3'- caUGaUGaAGGCCGGGCCG---------CGCaAGG- -5'
19161 3' -56.5 NC_004684.1 + 9280 0.67 0.670192
Target:  5'- cGUugUucGCggacCCGGCCaugcuCGGCGCGcUCCc -3'
miRNA:   3'- -CAugA--UGaa--GGCCGG-----GCCGCGCaAGG- -5'
19161 3' -56.5 NC_004684.1 + 17730 0.67 0.659526
Target:  5'- -aACUGCggucgcCCGGaauCCGGCGCGg-CCa -3'
miRNA:   3'- caUGAUGaa----GGCCg--GGCCGCGCaaGG- -5'
19161 3' -56.5 NC_004684.1 + 54353 0.67 0.659526
Target:  5'- -cGCggaaGCcgaCCGGCCCGGCGaCGUaaCCg -3'
miRNA:   3'- caUGa---UGaa-GGCCGGGCCGC-GCAa-GG- -5'
19161 3' -56.5 NC_004684.1 + 44439 0.67 0.659526
Target:  5'- -gGCgcGCUUCUGGCCuuCGGCgGUGUUgCCg -3'
miRNA:   3'- caUGa-UGAAGGCCGG--GCCG-CGCAA-GG- -5'
19161 3' -56.5 NC_004684.1 + 25750 0.67 0.648837
Target:  5'- uGUACggcGCgauccCCGGCCUGGCGUccgGcUCCa -3'
miRNA:   3'- -CAUGa--UGaa---GGCCGGGCCGCG---CaAGG- -5'
19161 3' -56.5 NC_004684.1 + 42545 0.67 0.638133
Target:  5'- cGUGCUgACggcgUUCGGCuUCGGCGUGgccgCCa -3'
miRNA:   3'- -CAUGA-UGa---AGGCCG-GGCCGCGCaa--GG- -5'
19161 3' -56.5 NC_004684.1 + 13756 0.67 0.627424
Target:  5'- gGUGCU-Caa-CGGCCUGGCGC--UCCa -3'
miRNA:   3'- -CAUGAuGaagGCCGGGCCGCGcaAGG- -5'
19161 3' -56.5 NC_004684.1 + 27888 0.68 0.621
Target:  5'- -gGCUACgacgacaguuggcCCGGCCUGcGCGaGUUCCu -3'
miRNA:   3'- caUGAUGaa-----------GGCCGGGC-CGCgCAAGG- -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.