miRNA display CGI


Results 1 - 20 of 70 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
25490 3' -59.3 NC_005336.1 + 13874 0.68 0.57533
Target:  5'- aGUCGGcacGCGGCgcguccGCggGCGCUUCUUg -3'
miRNA:   3'- gCGGCCa--CGCCGa-----CGa-CGCGAAGAAg -5'
25490 3' -59.3 NC_005336.1 + 21652 0.69 0.565288
Target:  5'- uCGCCGuGcUGCGGCUGCUG-GuCUgggcCUUCc -3'
miRNA:   3'- -GCGGC-C-ACGCCGACGACgC-GAa---GAAG- -5'
25490 3' -59.3 NC_005336.1 + 24444 0.67 0.66666
Target:  5'- gGCCGuGgagacGCuGCUGCgGCGCUUCcgUCg -3'
miRNA:   3'- gCGGC-Ca----CGcCGACGaCGCGAAGa-AG- -5'
25490 3' -59.3 NC_005336.1 + 38292 0.72 0.397277
Target:  5'- uCGCCG--GCGGCaacgcGCUGCGCgUCUUCu -3'
miRNA:   3'- -GCGGCcaCGCCGa----CGACGCGaAGAAG- -5'
25490 3' -59.3 NC_005336.1 + 38621 0.66 0.743191
Target:  5'- aCGCUGGUGCGcgcgcacaccGCUacuuaccucgccucGCUGgGCUUCggcUCg -3'
miRNA:   3'- -GCGGCCACGC----------CGA--------------CGACgCGAAGa--AG- -5'
25490 3' -59.3 NC_005336.1 + 39421 0.68 0.584401
Target:  5'- gGCCGc-GUGGCgcccgGCaccuacgUGCGCUUCUUCg -3'
miRNA:   3'- gCGGCcaCGCCGa----CG-------ACGCGAAGAAG- -5'
25490 3' -59.3 NC_005336.1 + 39590 0.66 0.696891
Target:  5'- aGCaCGGUGCGuGCgggGUUGCGCg----- -3'
miRNA:   3'- gCG-GCCACGC-CGa--CGACGCGaagaag -5'
25490 3' -59.3 NC_005336.1 + 40458 0.66 0.696891
Target:  5'- aCGCCGGagGCGGCgcacGCaGCGagcaCUUCg -3'
miRNA:   3'- -GCGGCCa-CGCCGa---CGaCGCgaa-GAAG- -5'
25490 3' -59.3 NC_005336.1 + 40610 0.72 0.405777
Target:  5'- gCGCCGucguUGUGGCUGCggcgGCGCaUCUUg -3'
miRNA:   3'- -GCGGCc---ACGCCGACGa---CGCGaAGAAg -5'
25490 3' -59.3 NC_005336.1 + 40679 0.69 0.565288
Target:  5'- aGCCGGUGCcGCUGC-GCGUccUCggCg -3'
miRNA:   3'- gCGGCCACGcCGACGaCGCGa-AGaaG- -5'
25490 3' -59.3 NC_005336.1 + 42146 0.67 0.686856
Target:  5'- gCGCCGcGgcgcGCGGCcucGCUGUGCcacggCUUCg -3'
miRNA:   3'- -GCGGC-Ca---CGCCGa--CGACGCGaa---GAAG- -5'
25490 3' -59.3 NC_005336.1 + 42298 0.73 0.358896
Target:  5'- aCGCCGGcaagucgUGCGGCUGCgccucgaggcugcgGCGCUgg-UCg -3'
miRNA:   3'- -GCGGCC-------ACGCCGACGa-------------CGCGAagaAG- -5'
25490 3' -59.3 NC_005336.1 + 42384 0.67 0.676776
Target:  5'- uGgCGGUGgucgaCGGCUGCUGCGUgcgCg-- -3'
miRNA:   3'- gCgGCCAC-----GCCGACGACGCGaa-Gaag -5'
25490 3' -59.3 NC_005336.1 + 44227 0.67 0.66666
Target:  5'- gCGCCcgaggaGGUagaGCGGCUGCUgGCGCUg---- -3'
miRNA:   3'- -GCGG------CCA---CGCCGACGA-CGCGAagaag -5'
25490 3' -59.3 NC_005336.1 + 45151 0.67 0.673745
Target:  5'- uGCUGauaUGCGGCgUGCUGCuGCUgacggccgccugcgUCUUCg -3'
miRNA:   3'- gCGGCc--ACGCCG-ACGACG-CGA--------------AGAAG- -5'
25490 3' -59.3 NC_005336.1 + 48103 0.67 0.66666
Target:  5'- aCGCgCGGUcGCGGCUGCgcaugcggUGCGCcggcgcgCUUg -3'
miRNA:   3'- -GCG-GCCA-CGCCGACG--------ACGCGaa-----GAAg -5'
25490 3' -59.3 NC_005336.1 + 49160 0.68 0.595525
Target:  5'- aCGcCCGGgcUGCGGCagaUGUgGCGCUUCaUCu -3'
miRNA:   3'- -GC-GGCC--ACGCCG---ACGaCGCGAAGaAG- -5'
25490 3' -59.3 NC_005336.1 + 50767 0.66 0.706873
Target:  5'- gCGCCGGUGCucacGCUccaCUGCGCggCgUCg -3'
miRNA:   3'- -GCGGCCACGc---CGAc--GACGCGaaGaAG- -5'
25490 3' -59.3 NC_005336.1 + 50971 0.71 0.431949
Target:  5'- gCGCCGGcGCGGCgGCcgGCGCaUCa-- -3'
miRNA:   3'- -GCGGCCaCGCCGaCGa-CGCGaAGaag -5'
25490 3' -59.3 NC_005336.1 + 54545 0.69 0.519784
Target:  5'- aGgUGGUGCGGCUGCucaaccaccucugcgUGCGCUgcgggCUg- -3'
miRNA:   3'- gCgGCCACGCCGACG---------------ACGCGAa----GAag -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.