miRNA display CGI


Results 1 - 18 of 18 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
22583 3' -50.8 NC_005091.1 + 47025 0.66 0.928845
Target:  5'- cGCAgaagcGGCCGAAuuGGGCGaucguGUUGCa -3'
miRNA:   3'- cCGUa----CCGGCUU--UCCGUgcuu-CAAUG- -5'
22583 3' -50.8 NC_005091.1 + 13769 0.66 0.922884
Target:  5'- -aCGUGGUCGGucGGCACGAc----- -3'
miRNA:   3'- ccGUACCGGCUuuCCGUGCUucaaug -5'
22583 3' -50.8 NC_005091.1 + 30252 0.66 0.916628
Target:  5'- cGGCGacaaGGCCG--GGGCGuCGAAGccgGCg -3'
miRNA:   3'- -CCGUa---CCGGCuuUCCGU-GCUUCaa-UG- -5'
22583 3' -50.8 NC_005091.1 + 43531 0.66 0.910078
Target:  5'- uGCGcGG-CGAAuuGaGCACGAAGUUACu -3'
miRNA:   3'- cCGUaCCgGCUUu-C-CGUGCUUCAAUG- -5'
22583 3' -50.8 NC_005091.1 + 11851 0.66 0.903236
Target:  5'- cGGCuuacGGCCGAAuugcGGCAUGAacggauGGUcGCu -3'
miRNA:   3'- -CCGua--CCGGCUUu---CCGUGCU------UCAaUG- -5'
22583 3' -50.8 NC_005091.1 + 6171 0.67 0.888692
Target:  5'- gGGCGacgaGCCGAAGcGGCGCGAcAGUcggACg -3'
miRNA:   3'- -CCGUac--CGGCUUU-CCGUGCU-UCAa--UG- -5'
22583 3' -50.8 NC_005091.1 + 7655 0.67 0.888692
Target:  5'- aGGCc--GCCGAAGcGGCccUGAAGUUACu -3'
miRNA:   3'- -CCGuacCGGCUUU-CCGu-GCUUCAAUG- -5'
22583 3' -50.8 NC_005091.1 + 23836 0.67 0.880999
Target:  5'- uGCGUaaucGcGCCGAGcuGCACGAGGUUGu -3'
miRNA:   3'- cCGUA----C-CGGCUUucCGUGCUUCAAUg -5'
22583 3' -50.8 NC_005091.1 + 52115 0.67 0.880999
Target:  5'- aGGC--GGCCGucgccGGCGCGggGcgcgUUGCg -3'
miRNA:   3'- -CCGuaCCGGCuuu--CCGUGCuuC----AAUG- -5'
22583 3' -50.8 NC_005091.1 + 7543 0.67 0.873032
Target:  5'- cGGCAcGGCgGAAGGGCuguaaaucgGAAGUaACu -3'
miRNA:   3'- -CCGUaCCGgCUUUCCGug-------CUUCAaUG- -5'
22583 3' -50.8 NC_005091.1 + 17716 0.67 0.8648
Target:  5'- gGGCAUGGCCGcGAuuaucGGCGacgagaucauCGAGGUg-- -3'
miRNA:   3'- -CCGUACCGGCuUU-----CCGU----------GCUUCAaug -5'
22583 3' -50.8 NC_005091.1 + 52712 0.68 0.838583
Target:  5'- cGGCuuUGcGCUggGAAAGGCGCGGAuGUUGa -3'
miRNA:   3'- -CCGu-AC-CGG--CUUUCCGUGCUU-CAAUg -5'
22583 3' -50.8 NC_005091.1 + 4683 0.69 0.810284
Target:  5'- gGGCcggGGCCGucgcuGGUagcuccccggacACGAAGUUACu -3'
miRNA:   3'- -CCGua-CCGGCuuu--CCG------------UGCUUCAAUG- -5'
22583 3' -50.8 NC_005091.1 + 1688 0.7 0.748626
Target:  5'- cGGCAUcggcuaucGGCCuGAAGGaGCGCGucaaaGGGUUACu -3'
miRNA:   3'- -CCGUA--------CCGG-CUUUC-CGUGC-----UUCAAUG- -5'
22583 3' -50.8 NC_005091.1 + 15539 0.71 0.67114
Target:  5'- cGGCAUGGaCUGucacGGGUGCGggGccgUACa -3'
miRNA:   3'- -CCGUACC-GGCuu--UCCGUGCuuCa--AUG- -5'
22583 3' -50.8 NC_005091.1 + 48589 0.72 0.648465
Target:  5'- cGGCGaGGCgCGAAuGGCGgGAGGgcGCa -3'
miRNA:   3'- -CCGUaCCG-GCUUuCCGUgCUUCaaUG- -5'
22583 3' -50.8 NC_005091.1 + 44869 0.8 0.25497
Target:  5'- cGGCAaggcGGCCG-AAGGCACGAAGgcaACg -3'
miRNA:   3'- -CCGUa---CCGGCuUUCCGUGCUUCaa-UG- -5'
22583 3' -50.8 NC_005091.1 + 22585 1.13 0.001633
Target:  5'- aGGCAUGGCCGAAAGGCACGAAGUUACu -3'
miRNA:   3'- -CCGUACCGGCUUUCCGUGCUUCAAUG- -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.