miRNA display CGI


Results 1 - 19 of 19 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
11442 5' -61 NC_003085.1 + 10545 0.66 0.405269
Target:  5'- aCCGGGCaaCCCCGCCUUGaCGagaGUcGGCGg -3'
miRNA:   3'- gGGUUCG--GGGGCGGGAC-GCa--CA-UCGU- -5'
11442 5' -61 NC_003085.1 + 12612 0.66 0.370279
Target:  5'- aCCGGGUUgCCGCCaggcaGCGUGUAGg- -3'
miRNA:   3'- gGGUUCGGgGGCGGga---CGCACAUCgu -5'
11442 5' -61 NC_003085.1 + 35238 0.66 0.36186
Target:  5'- aCCGGGCCCCUGCuuccgCUUGCGcGcgGGCu -3'
miRNA:   3'- gGGUUCGGGGGCG-----GGACGCaCa-UCGu -5'
11442 5' -61 NC_003085.1 + 23859 0.67 0.33741
Target:  5'- uCCUGAGCCCCCauucGCgUCgggGCGUG-AGCGa -3'
miRNA:   3'- -GGGUUCGGGGG----CG-GGa--CGCACaUCGU- -5'
11442 5' -61 NC_003085.1 + 16720 0.67 0.336616
Target:  5'- -gCGAGCaCUCUGCUCUGCGauggcauccucggUGUGGCGa -3'
miRNA:   3'- ggGUUCG-GGGGCGGGACGC-------------ACAUCGU- -5'
11442 5' -61 NC_003085.1 + 20046 0.67 0.327973
Target:  5'- gCCUGAGCCUCCGCCaugggcuggccGCGcUGgcGCAg -3'
miRNA:   3'- -GGGUUCGGGGGCGGga---------CGC-ACauCGU- -5'
11442 5' -61 NC_003085.1 + 18198 0.67 0.314186
Target:  5'- gUCCAcaCCCCCGCUgaGCcUGUGGCu -3'
miRNA:   3'- -GGGUucGGGGGCGGgaCGcACAUCGu -5'
11442 5' -61 NC_003085.1 + 38128 0.67 0.314186
Target:  5'- gCCGugaGGCUCgCCGCCCUGCuGgcguuggugGUGGCGc -3'
miRNA:   3'- gGGU---UCGGG-GGCGGGACG-Ca--------CAUCGU- -5'
11442 5' -61 NC_003085.1 + 8135 0.67 0.314186
Target:  5'- gCCAAGUCCCCggGCUUcgGCGUGUcggugGGCGu -3'
miRNA:   3'- gGGUUCGGGGG--CGGGa-CGCACA-----UCGU- -5'
11442 5' -61 NC_003085.1 + 17784 0.68 0.304504
Target:  5'- gCCAagGGCCCCCGCCCgaguccgaccaaucUGCcgccgAGCAg -3'
miRNA:   3'- gGGU--UCGGGGGCGGG--------------ACGcaca-UCGU- -5'
11442 5' -61 NC_003085.1 + 1226 0.68 0.285132
Target:  5'- aCCAAGgacaaCCCUGCCCUG-GUGgcGUAc -3'
miRNA:   3'- gGGUUCg----GGGGCGGGACgCACauCGU- -5'
11442 5' -61 NC_003085.1 + 21892 0.69 0.258241
Target:  5'- gCCGGGUCCgUGCCCUGCcaGaUGGCGa -3'
miRNA:   3'- gGGUUCGGGgGCGGGACGcaC-AUCGU- -5'
11442 5' -61 NC_003085.1 + 18484 0.69 0.25185
Target:  5'- aCUCGcAGCCCCCGUCCUcaagGCGgccAGCAu -3'
miRNA:   3'- -GGGU-UCGGGGGCGGGA----CGCacaUCGU- -5'
11442 5' -61 NC_003085.1 + 581 0.69 0.238854
Target:  5'- -gCGAGCCCCCGCCgCaGgGUGUcucgacuGGCGc -3'
miRNA:   3'- ggGUUCGGGGGCGG-GaCgCACA-------UCGU- -5'
11442 5' -61 NC_003085.1 + 43742 0.7 0.210707
Target:  5'- aCCCGAGCCgggUCCGCCCcgGUGgugGgcGCGg -3'
miRNA:   3'- -GGGUUCGG---GGGCGGGa-CGCa--CauCGU- -5'
11442 5' -61 NC_003085.1 + 22310 0.7 0.205326
Target:  5'- gCCCGucuGGUCCCCGaaggugagcaCCUGCGUG-GGCGu -3'
miRNA:   3'- -GGGU---UCGGGGGCg---------GGACGCACaUCGU- -5'
11442 5' -61 NC_003085.1 + 28354 0.72 0.153632
Target:  5'- uCCCAcaCCUCCGCCCUGUcccagggGUGGCAg -3'
miRNA:   3'- -GGGUucGGGGGCGGGACGca-----CAUCGU- -5'
11442 5' -61 NC_003085.1 + 16918 0.77 0.061779
Target:  5'- aCCCcAGCCCCCGCCC-GUGgagGGCAa -3'
miRNA:   3'- -GGGuUCGGGGGCGGGaCGCacaUCGU- -5'
11442 5' -61 NC_003085.1 + 32772 1.1 0.000205
Target:  5'- cCCCAAGCCCCCGCCCUGCGUGUAGCAg -3'
miRNA:   3'- -GGGUUCGGGGGCGGGACGCACAUCGU- -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.