miRNA display CGI


Results 1 - 20 of 54 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
25047 3' -48.9 NC_005336.1 + 128321 1.07 0.013263
Target:  5'- cAUGAACCGCUACAACACCUUCUACUCc -3'
miRNA:   3'- -UACUUGGCGAUGUUGUGGAAGAUGAG- -5'
25047 3' -48.9 NC_005336.1 + 11439 0.82 0.409838
Target:  5'- -aGAGCCGCgugaACGGCACCUUCgGCUCc -3'
miRNA:   3'- uaCUUGGCGa---UGUUGUGGAAGaUGAG- -5'
25047 3' -48.9 NC_005336.1 + 38119 0.73 0.86788
Target:  5'- cAUG-GCCGCgaGCAGCGCCUgcgcCUGCUCc -3'
miRNA:   3'- -UACuUGGCGa-UGUUGUGGAa---GAUGAG- -5'
25047 3' -48.9 NC_005336.1 + 125930 0.72 0.897128
Target:  5'- gGUGGucgcggcGCCGCcgUGCGACACCgacgugCUGCUCu -3'
miRNA:   3'- -UACU-------UGGCG--AUGUUGUGGaa----GAUGAG- -5'
25047 3' -48.9 NC_005336.1 + 62195 0.72 0.91122
Target:  5'- uGUGGACCGCUuCGugGCCUUCg---- -3'
miRNA:   3'- -UACUUGGCGAuGUugUGGAAGaugag -5'
25047 3' -48.9 NC_005336.1 + 44127 0.71 0.944824
Target:  5'- -cGGGCCGCUACGcggcgcuggACACCUacgcggcgcUCUGCg- -3'
miRNA:   3'- uaCUUGGCGAUGU---------UGUGGA---------AGAUGag -5'
25047 3' -48.9 NC_005336.1 + 111635 0.7 0.953843
Target:  5'- -cGuGCgCGaCUACGACAUCUUCUACUa -3'
miRNA:   3'- uaCuUG-GC-GAUGUUGUGGAAGAUGAg -5'
25047 3' -48.9 NC_005336.1 + 48664 0.7 0.957955
Target:  5'- cAUGAGcuCCGuCUGCuACACCUUCgcGCUCu -3'
miRNA:   3'- -UACUU--GGC-GAUGuUGUGGAAGa-UGAG- -5'
25047 3' -48.9 NC_005336.1 + 36561 0.7 0.959527
Target:  5'- cGUGAGCCGCgucGCGggcuugcgcacgccgGCGCCgaUCUGCUUg -3'
miRNA:   3'- -UACUUGGCGa--UGU---------------UGUGGa-AGAUGAG- -5'
25047 3' -48.9 NC_005336.1 + 48482 0.7 0.961809
Target:  5'- cAUGAagGCCGUgaGCAGCACCUUCaACg- -3'
miRNA:   3'- -UACU--UGGCGa-UGUUGUGGAAGaUGag -5'
25047 3' -48.9 NC_005336.1 + 130630 0.69 0.971885
Target:  5'- -gGGGCCGCUGCGACgaggugcucaagGCCgg--GCUCg -3'
miRNA:   3'- uaCUUGGCGAUGUUG------------UGGaagaUGAG- -5'
25047 3' -48.9 NC_005336.1 + 93791 0.69 0.971885
Target:  5'- -cGcGCCGCUGCGGCGacuCCUgugCUGCUg -3'
miRNA:   3'- uaCuUGGCGAUGUUGU---GGAa--GAUGAg -5'
25047 3' -48.9 NC_005336.1 + 132307 0.69 0.972184
Target:  5'- uUGAGCCGCUcguGCGAcCGCCgcgcgcccgagugaCUGCUCa -3'
miRNA:   3'- uACUUGGCGA---UGUU-GUGGaa------------GAUGAG- -5'
25047 3' -48.9 NC_005336.1 + 128778 0.69 0.974772
Target:  5'- -gGGACgaCGCUgcgaACAACACCaagCUGCUCa -3'
miRNA:   3'- uaCUUG--GCGA----UGUUGUGGaa-GAUGAG- -5'
25047 3' -48.9 NC_005336.1 + 99124 0.69 0.977437
Target:  5'- -aGGACgCGCaGCGGCACCggCUGgUCa -3'
miRNA:   3'- uaCUUG-GCGaUGUUGUGGaaGAUgAG- -5'
25047 3' -48.9 NC_005336.1 + 130846 0.69 0.979889
Target:  5'- cGUGGACUGCcacgccACGGCGgCCUUCgUGCUCc -3'
miRNA:   3'- -UACUUGGCGa-----UGUUGU-GGAAG-AUGAG- -5'
25047 3' -48.9 NC_005336.1 + 125450 0.69 0.979889
Target:  5'- -cGGACCGCUGCuACuccuGCCUgagCgUGCUCu -3'
miRNA:   3'- uaCUUGGCGAUGuUG----UGGAa--G-AUGAG- -5'
25047 3' -48.9 NC_005336.1 + 120663 0.68 0.982137
Target:  5'- cUGGACgGgCUGCGGCACUccgugcUCUGCUCc -3'
miRNA:   3'- uACUUGgC-GAUGUUGUGGa-----AGAUGAG- -5'
25047 3' -48.9 NC_005336.1 + 99346 0.68 0.98419
Target:  5'- -aGGGCauccgGCUGCAGCACCg---GCUCg -3'
miRNA:   3'- uaCUUGg----CGAUGUUGUGGaagaUGAG- -5'
25047 3' -48.9 NC_005336.1 + 81698 0.68 0.986059
Target:  5'- -cGAGCCGCcACGcGCGCCUggaUCUcgcGCUCc -3'
miRNA:   3'- uaCUUGGCGaUGU-UGUGGA---AGA---UGAG- -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.