miRNA display CGI


Results 1 - 17 of 17 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
12407 3' -57.8 NC_003324.1 + 47122 0.66 0.606229
Target:  5'- -aGGcaaaCGAGAGGCAacCGCCUCaauCGACGa -3'
miRNA:   3'- uaCCca--GCUCUUCGU--GCGGAG---GCUGC- -5'
12407 3' -57.8 NC_003324.1 + 25822 0.66 0.583631
Target:  5'- -aGGGUUcgcggcgcaccgaGAGAAGUucACGCCgUCuCGACGa -3'
miRNA:   3'- uaCCCAG-------------CUCUUCG--UGCGG-AG-GCUGC- -5'
12407 3' -57.8 NC_003324.1 + 16751 0.66 0.573995
Target:  5'- --aGG-CG-GAuGCAUGCCUCCGACu -3'
miRNA:   3'- uacCCaGCuCUuCGUGCGGAGGCUGc -5'
12407 3' -57.8 NC_003324.1 + 25793 0.66 0.572926
Target:  5'- uUGGcgguaccgucauaGUCGAGAcGCACGCCUgCG-CGc -3'
miRNA:   3'- uACC-------------CAGCUCUuCGUGCGGAgGCuGC- -5'
12407 3' -57.8 NC_003324.1 + 54494 0.66 0.562268
Target:  5'- aAUGGGU-GAGggGCAUccgcgaaGCCUgcagcgcgaCCGGCGu -3'
miRNA:   3'- -UACCCAgCUCuuCGUG-------CGGA---------GGCUGC- -5'
12407 3' -57.8 NC_003324.1 + 7551 0.67 0.531692
Target:  5'- -aGGGccagCaAGgcGCACGCCUCCGGa- -3'
miRNA:   3'- uaCCCa---GcUCuuCGUGCGGAGGCUgc -5'
12407 3' -57.8 NC_003324.1 + 30922 0.67 0.531692
Target:  5'- -cGGGcggCGAGAAGUuccucgaaGCgUCCGACGc -3'
miRNA:   3'- uaCCCa--GCUCUUCGug------CGgAGGCUGC- -5'
12407 3' -57.8 NC_003324.1 + 25519 0.67 0.531692
Target:  5'- aGUGGGUCGGcuGggGCggccugcgcaACGCCUUCuacccgagGACGg -3'
miRNA:   3'- -UACCCAGCU--CuuCG----------UGCGGAGG--------CUGC- -5'
12407 3' -57.8 NC_003324.1 + 37291 0.67 0.521285
Target:  5'- cUGGGUaaucggcacaGAGAAGCGCaGCCguaCCGAUu -3'
miRNA:   3'- uACCCAg---------CUCUUCGUG-CGGa--GGCUGc -5'
12407 3' -57.8 NC_003324.1 + 57036 0.68 0.480515
Target:  5'- cUGGGgagcggcggCGAGGGcGCggAUGCCUUCGACGa -3'
miRNA:   3'- uACCCa--------GCUCUU-CG--UGCGGAGGCUGC- -5'
12407 3' -57.8 NC_003324.1 + 52208 0.68 0.470564
Target:  5'- ---cGUCGGGGAGCuCGCCUUCGcCGa -3'
miRNA:   3'- uaccCAGCUCUUCGuGCGGAGGCuGC- -5'
12407 3' -57.8 NC_003324.1 + 19580 0.69 0.404082
Target:  5'- -cGcGG-CaAGAAGCACGCCgacgCCGACGc -3'
miRNA:   3'- uaC-CCaGcUCUUCGUGCGGa---GGCUGC- -5'
12407 3' -57.8 NC_003324.1 + 43451 0.71 0.320088
Target:  5'- uUGGGUCGAGccGCaaGCGCUUCCuGCu -3'
miRNA:   3'- uACCCAGCUCuuCG--UGCGGAGGcUGc -5'
12407 3' -57.8 NC_003324.1 + 40715 0.71 0.290353
Target:  5'- aGUGGuGUUGAGGAGgAuCGCCcugaUCCGGCGg -3'
miRNA:   3'- -UACC-CAGCUCUUCgU-GCGG----AGGCUGC- -5'
12407 3' -57.8 NC_003324.1 + 38721 0.72 0.26883
Target:  5'- -cGGGUCGAGAcauaccaGGCGCGCUuggccucugaaaUCgGGCGg -3'
miRNA:   3'- uaCCCAGCUCU-------UCGUGCGG------------AGgCUGC- -5'
12407 3' -57.8 NC_003324.1 + 33957 0.77 0.121898
Target:  5'- cAUGGGUCGGGAuuaAGCAC-CCgcCCGACGg -3'
miRNA:   3'- -UACCCAGCUCU---UCGUGcGGa-GGCUGC- -5'
12407 3' -57.8 NC_003324.1 + 1307 1.06 0.000958
Target:  5'- cAUGGGUCGAGAAGCACGCCUCCGACGu -3'
miRNA:   3'- -UACCCAGCUCUUCGUGCGGAGGCUGC- -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.