miRNA display CGI


Results 1 - 16 of 16 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
23161 5' -59.6 NC_005178.1 + 17301 0.66 0.378133
Target:  5'- aGGCCaaaGGUCGCgGCCG-CUCgGCGu -3'
miRNA:   3'- aCUGGga-CCAGCGgUGGCaGAG-CGUu -5'
23161 5' -59.6 NC_005178.1 + 37041 0.66 0.378133
Target:  5'- gGACCgacGG-CGCCACCGUgCUUGUGAa -3'
miRNA:   3'- aCUGGga-CCaGCGGUGGCA-GAGCGUU- -5'
23161 5' -59.6 NC_005178.1 + 14195 0.66 0.378133
Target:  5'- -cGCCCUGGUgcgaCGCCccgguGCCGaUCUCGUc- -3'
miRNA:   3'- acUGGGACCA----GCGG-----UGGC-AGAGCGuu -5'
23161 5' -59.6 NC_005178.1 + 13268 0.66 0.352033
Target:  5'- gGACCUcgccguaGG-CGCCAUCGgCUCGCAGg -3'
miRNA:   3'- aCUGGGa------CCaGCGGUGGCaGAGCGUU- -5'
23161 5' -59.6 NC_005178.1 + 20231 0.66 0.352033
Target:  5'- cGACCUcGGcC-CCGCCGUCcggCGCAAc -3'
miRNA:   3'- aCUGGGaCCaGcGGUGGCAGa--GCGUU- -5'
23161 5' -59.6 NC_005178.1 + 2780 0.66 0.343621
Target:  5'- cUGGCCCUGGUCGaaaCCaACCGcCa-GCAAc -3'
miRNA:   3'- -ACUGGGACCAGC---GG-UGGCaGagCGUU- -5'
23161 5' -59.6 NC_005178.1 + 32627 0.66 0.33372
Target:  5'- aGACCC-GGUCGCCgagcgguGCCGUCgaccuggUCGUc- -3'
miRNA:   3'- aCUGGGaCCAGCGG-------UGGCAG-------AGCGuu -5'
23161 5' -59.6 NC_005178.1 + 17842 0.67 0.327235
Target:  5'- cGcACCCUGGgagCGCCuGCCGccCUCgGCGAg -3'
miRNA:   3'- aC-UGGGACCa--GCGG-UGGCa-GAG-CGUU- -5'
23161 5' -59.6 NC_005178.1 + 27142 0.67 0.311436
Target:  5'- cGGCC--GGaaaauaUCGCCGCCG-CUCGCAAg -3'
miRNA:   3'- aCUGGgaCC------AGCGGUGGCaGAGCGUU- -5'
23161 5' -59.6 NC_005178.1 + 25412 0.67 0.303756
Target:  5'- cGGCCCggaucaaggcgaUGGUCGCCGCC-UCccUGCAAc -3'
miRNA:   3'- aCUGGG------------ACCAGCGGUGGcAGa-GCGUU- -5'
23161 5' -59.6 NC_005178.1 + 21355 0.68 0.267543
Target:  5'- aUGGCCgaGGcCgGUCACCG-CUCGCAGc -3'
miRNA:   3'- -ACUGGgaCCaG-CGGUGGCaGAGCGUU- -5'
23161 5' -59.6 NC_005178.1 + 33581 0.69 0.211248
Target:  5'- aGGCCgacgugCUGGUCGCgACCGgcgacgcgCUCGCGc -3'
miRNA:   3'- aCUGG------GACCAGCGgUGGCa-------GAGCGUu -5'
23161 5' -59.6 NC_005178.1 + 5873 0.7 0.189677
Target:  5'- cGGCCCUcGGcCGcCCAUCGUCcagCGCGAg -3'
miRNA:   3'- aCUGGGA-CCaGC-GGUGGCAGa--GCGUU- -5'
23161 5' -59.6 NC_005178.1 + 5272 0.71 0.174791
Target:  5'- uUGGCCgaGGcCGCCACCGUUcagggccggCGCGAg -3'
miRNA:   3'- -ACUGGgaCCaGCGGUGGCAGa--------GCGUU- -5'
23161 5' -59.6 NC_005178.1 + 12678 0.72 0.140078
Target:  5'- gUGG-CCUGGUUGCCugCGgccugCUCGCGg -3'
miRNA:   3'- -ACUgGGACCAGCGGugGCa----GAGCGUu -5'
23161 5' -59.6 NC_005178.1 + 32037 1.05 0.000384
Target:  5'- cUGACCCUGGUCGCCACCGUCUCGCAAc -3'
miRNA:   3'- -ACUGGGACCAGCGGUGGCAGAGCGUU- -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.