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
11574 3' -58 NC_003085.1 + 14051 0.66 0.567805
Target:  5'- cGACGGCGUguccgUCGAGGcCAUCUGcgagcgccucGGACu -3'
miRNA:   3'- uCUGCUGCA-----GGCUCCcGUAGAC----------CCUG- -5'
11574 3' -58 NC_003085.1 + 536 0.66 0.546494
Target:  5'- uGACGACGUUCGgcagccAGGGCGg--GGuGGCc -3'
miRNA:   3'- uCUGCUGCAGGC------UCCCGUagaCC-CUG- -5'
11574 3' -58 NC_003085.1 + 30344 0.66 0.535933
Target:  5'- cGGCauucACGUCCGccuGGGGCGgcgGGGGCu -3'
miRNA:   3'- uCUGc---UGCAGGC---UCCCGUagaCCCUG- -5'
11574 3' -58 NC_003085.1 + 46011 0.66 0.525445
Target:  5'- uGACGACGgCCGggcAGGGCAugUCaGuGGGCu -3'
miRNA:   3'- uCUGCUGCaGGC---UCCCGU--AGaC-CCUG- -5'
11574 3' -58 NC_003085.1 + 6162 0.66 0.515035
Target:  5'- cAGGCGACGgaggacucCCuGGGGCcgCUGGuGCa -3'
miRNA:   3'- -UCUGCUGCa-------GGcUCCCGuaGACCcUG- -5'
11574 3' -58 NC_003085.1 + 46424 0.67 0.480308
Target:  5'- cGGAUGAacuugccgccaucuCGUCCGGcaguuucGGGCAguugaaguugcUCUGGGAUg -3'
miRNA:   3'- -UCUGCU--------------GCAGGCU-------CCCGU-----------AGACCCUG- -5'
11574 3' -58 NC_003085.1 + 48651 0.67 0.471305
Target:  5'- cGGCGgugGCGUCCGAgGGGCAUCccgugccaacccgcUcGGGAg -3'
miRNA:   3'- uCUGC---UGCAGGCU-CCCGUAG--------------A-CCCUg -5'
11574 3' -58 NC_003085.1 + 396 0.67 0.45454
Target:  5'- uGGCGGCGggcuucuucuUCgCGGGGGCAgCggacgGGGACu -3'
miRNA:   3'- uCUGCUGC----------AG-GCUCCCGUaGa----CCCUG- -5'
11574 3' -58 NC_003085.1 + 7866 0.68 0.425765
Target:  5'- -uGCGACGcCCaaGGGGCAUCUGaccguGGGCa -3'
miRNA:   3'- ucUGCUGCaGGc-UCCCGUAGAC-----CCUG- -5'
11574 3' -58 NC_003085.1 + 30401 0.68 0.398102
Target:  5'- cGACaGCGUCCGccAGGGCccgCUGGGu- -3'
miRNA:   3'- uCUGcUGCAGGC--UCCCGua-GACCCug -5'
11574 3' -58 NC_003085.1 + 49423 0.68 0.3972
Target:  5'- cGGGCGGCGggCCcccaauguggggaGAGGGCGggacggagCUGGGAg -3'
miRNA:   3'- -UCUGCUGCa-GG-------------CUCCCGUa-------GACCCUg -5'
11574 3' -58 NC_003085.1 + 1351 0.69 0.383828
Target:  5'- cGGACGGCuUCCGccuGGGCucuacaucccucccgAcgUCUGGGACg -3'
miRNA:   3'- -UCUGCUGcAGGCu--CCCG---------------U--AGACCCUG- -5'
11574 3' -58 NC_003085.1 + 30222 0.69 0.380312
Target:  5'- gGGGUGACGUCCugcguGGGCugCUGGGGCc -3'
miRNA:   3'- -UCUGCUGCAGGcu---CCCGuaGACCCUG- -5'
11574 3' -58 NC_003085.1 + 40696 0.69 0.354643
Target:  5'- gGGACGACGUCCGGGuGCu----GGACg -3'
miRNA:   3'- -UCUGCUGCAGGCUCcCGuagacCCUG- -5'
11574 3' -58 NC_003085.1 + 34448 0.7 0.346363
Target:  5'- cGGCGACGUCggccagcaUGAGcGUcUCUGGGACg -3'
miRNA:   3'- uCUGCUGCAG--------GCUCcCGuAGACCCUG- -5'
11574 3' -58 NC_003085.1 + 43325 0.72 0.22688
Target:  5'- cGugGA-GUCCGAGGGCg---GGGACc -3'
miRNA:   3'- uCugCUgCAGGCUCCCGuagaCCCUG- -5'
11574 3' -58 NC_003085.1 + 27093 1.1 0.000435
Target:  5'- cAGACGACGUCCGAGGGCAUCUGGGACg -3'
miRNA:   3'- -UCUGCUGCAGGCUCCCGUAGACCCUG- -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.