miRNA display CGI


Results 1 - 20 of 25 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
12396 3' -57.1 NC_003324.1 + 27537 0.66 0.646766
Target:  5'- cGCAUCGCCgcaucccgauagcccCGUUGCCUaUCAgaUGGCCa -3'
miRNA:   3'- -UGUAGUGGa--------------GCAGCGGG-GGUa-ACCGG- -5'
12396 3' -57.1 NC_003324.1 + 48906 1.11 0.000506
Target:  5'- gACAUCACCUCGUCGCCCCCAUUGGCCu -3'
miRNA:   3'- -UGUAGUGGAGCAGCGGGGGUAACCGG- -5'
12396 3' -57.1 NC_003324.1 + 8149 0.73 0.280437
Target:  5'- -gGUCACCUCcucgacgaaGUUGCCCUCGUUGagcGCCa -3'
miRNA:   3'- ugUAGUGGAG---------CAGCGGGGGUAAC---CGG- -5'
12396 3' -57.1 NC_003324.1 + 13493 0.72 0.294658
Target:  5'- ---aCACCUCaGUCGCCUgUAUcUGGCCg -3'
miRNA:   3'- uguaGUGGAG-CAGCGGGgGUA-ACCGG- -5'
12396 3' -57.1 NC_003324.1 + 49609 0.71 0.348817
Target:  5'- cACGUCGCCUCGcCGCUCgauacGGCCg -3'
miRNA:   3'- -UGUAGUGGAGCaGCGGGgguaaCCGG- -5'
12396 3' -57.1 NC_003324.1 + 25338 0.7 0.374107
Target:  5'- gACAUCGCC-CGUCGCCU----UGGCUu -3'
miRNA:   3'- -UGUAGUGGaGCAGCGGGgguaACCGG- -5'
12396 3' -57.1 NC_003324.1 + 16059 0.69 0.466871
Target:  5'- gGCAUCGCCgcgcaucuuaUCGUCGCCaacgCCCAcc-GCCu -3'
miRNA:   3'- -UGUAGUGG----------AGCAGCGG----GGGUaacCGG- -5'
12396 3' -57.1 NC_003324.1 + 37657 0.68 0.486827
Target:  5'- -gGUCACCaugaUCGaCGCCCUCAcgGGCa -3'
miRNA:   3'- ugUAGUGG----AGCaGCGGGGGUaaCCGg -5'
12396 3' -57.1 NC_003324.1 + 11639 0.67 0.53835
Target:  5'- aGCAUCGgCUgcUCGCCCgCAaaGGCCg -3'
miRNA:   3'- -UGUAGUgGAgcAGCGGGgGUaaCCGG- -5'
12396 3' -57.1 NC_003324.1 + 7184 0.66 0.613202
Target:  5'- uCGUgACCUCGUCGCUUUCGc--GCCa -3'
miRNA:   3'- uGUAgUGGAGCAGCGGGGGUaacCGG- -5'
12396 3' -57.1 NC_003324.1 + 49440 0.66 0.624025
Target:  5'- -gGUCGCCcgaUCGUCGacaCCgCUGUUGGCg -3'
miRNA:   3'- ugUAGUGG---AGCAGCg--GG-GGUAACCGg -5'
12396 3' -57.1 NC_003324.1 + 14606 0.66 0.624025
Target:  5'- aGCGccagCGCCUUGUCGCggacgCCCUgccgcgcaguGUUGGCUg -3'
miRNA:   3'- -UGUa---GUGGAGCAGCG-----GGGG----------UAACCGG- -5'
12396 3' -57.1 NC_003324.1 + 39640 0.66 0.645683
Target:  5'- gACGUggCGCCaggCGggaCGCUCCCcgUGGUCg -3'
miRNA:   3'- -UGUA--GUGGa--GCa--GCGGGGGuaACCGG- -5'
12396 3' -57.1 NC_003324.1 + 17414 0.72 0.317032
Target:  5'- cGCGU-GCCaCGUCGCCCUCGUcGGUCa -3'
miRNA:   3'- -UGUAgUGGaGCAGCGGGGGUAaCCGG- -5'
12396 3' -57.1 NC_003324.1 + 29745 0.66 0.656499
Target:  5'- uCAUCGCCuUCGUaCGCCUCgAUgcGCCc -3'
miRNA:   3'- uGUAGUGG-AGCA-GCGGGGgUAacCGG- -5'
12396 3' -57.1 NC_003324.1 + 19765 0.66 0.645683
Target:  5'- -gGUCugUUCG-CGuCCCCCGgcGGCa -3'
miRNA:   3'- ugUAGugGAGCaGC-GGGGGUaaCCGg -5'
12396 3' -57.1 NC_003324.1 + 19117 0.66 0.634855
Target:  5'- gGCAUUGCgCUUGUCGaUCCCGgucaGGCCc -3'
miRNA:   3'- -UGUAGUG-GAGCAGCgGGGGUaa--CCGG- -5'
12396 3' -57.1 NC_003324.1 + 35100 0.66 0.633772
Target:  5'- gGCAUCAUCUgccuuucCGUCGUCgCCAgc-GCCg -3'
miRNA:   3'- -UGUAGUGGA-------GCAGCGGgGGUaacCGG- -5'
12396 3' -57.1 NC_003324.1 + 8465 0.66 0.613202
Target:  5'- cGCGUCAa-UCGagacuaCGCCCCgAUggUGGCCg -3'
miRNA:   3'- -UGUAGUggAGCa-----GCGGGGgUA--ACCGG- -5'
12396 3' -57.1 NC_003324.1 + 48161 0.67 0.591611
Target:  5'- gACAUUGCagcgaCGUgGUCCCUAUcGGCCg -3'
miRNA:   3'- -UGUAGUGga---GCAgCGGGGGUAaCCGG- -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.