miRNA display CGI


Results 1 - 20 of 120 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
21395 3' -57.6 NC_004812.1 + 130150 1.09 0.002098
Target:  5'- cAGAGAGCAAGCGACCCCUCGUCCUCGg -3'
miRNA:   3'- -UCUCUCGUUCGCUGGGGAGCAGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 135863 0.79 0.218998
Target:  5'- cGGAGGGCAacuucAGCGcCCCCgaCGUCCUCGc -3'
miRNA:   3'- -UCUCUCGU-----UCGCuGGGGa-GCAGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 21666 0.78 0.246837
Target:  5'- aGGAGAGCcacGGCuggGACCCCUCGUCCg-- -3'
miRNA:   3'- -UCUCUCGu--UCG---CUGGGGAGCAGGagc -5'
21395 3' -57.6 NC_004812.1 + 124684 0.76 0.332878
Target:  5'- cGGGGAGCGAGCGGCCgCg-GUCgCUCGu -3'
miRNA:   3'- -UCUCUCGUUCGCUGGgGagCAG-GAGC- -5'
21395 3' -57.6 NC_004812.1 + 14553 0.76 0.340338
Target:  5'- cGGGGGCGGGCucgucgcccggGGCCUgCUCGUCCUCGu -3'
miRNA:   3'- uCUCUCGUUCG-----------CUGGG-GAGCAGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 123847 0.75 0.363438
Target:  5'- cGAcGGGCGAguGCGACCCCUgGgCCUCGg -3'
miRNA:   3'- uCU-CUCGUU--CGCUGGGGAgCaGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 153277 0.75 0.363438
Target:  5'- -cGGGGCGcGGCGGCCCCUCGggccCCUCc -3'
miRNA:   3'- ucUCUCGU-UCGCUGGGGAGCa---GGAGc -5'
21395 3' -57.6 NC_004812.1 + 122376 0.75 0.363438
Target:  5'- -cGGGGCGcGGCGGCCCCUCGggccCCUCc -3'
miRNA:   3'- ucUCUCGU-UCGCUGGGGAGCa---GGAGc -5'
21395 3' -57.6 NC_004812.1 + 8828 0.74 0.428395
Target:  5'- cGAGAGCcucggcagccucGGCGACCCCgCGUCCcgCGg -3'
miRNA:   3'- uCUCUCGu-----------UCGCUGGGGaGCAGGa-GC- -5'
21395 3' -57.6 NC_004812.1 + 20859 0.73 0.44792
Target:  5'- aGGGGGGCucGUGGCCCCUCccggacggCCUCGc -3'
miRNA:   3'- -UCUCUCGuuCGCUGGGGAGca------GGAGC- -5'
21395 3' -57.6 NC_004812.1 + 9243 0.73 0.44792
Target:  5'- gGGAGAGCucgcggaaGGGCGacGCCCCUCcUUCUCGg -3'
miRNA:   3'- -UCUCUCG--------UUCGC--UGGGGAGcAGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 145678 0.73 0.46609
Target:  5'- --cGAGCcgauaucGCGACCCCUCGUCCccCGa -3'
miRNA:   3'- ucuCUCGuu-----CGCUGGGGAGCAGGa-GC- -5'
21395 3' -57.6 NC_004812.1 + 1451 0.73 0.475317
Target:  5'- cGAGGGCcgggcacggcGGCGACgCCggCGUCCUCGg -3'
miRNA:   3'- uCUCUCGu---------UCGCUGgGGa-GCAGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 126959 0.73 0.475317
Target:  5'- cGAGGGCcgggcacggcGGCGACgCCggCGUCCUCGg -3'
miRNA:   3'- uCUCUCGu---------UCGCUGgGGa-GCAGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 79699 0.72 0.532435
Target:  5'- cGGGGGGCugcgGGUGGCCCCcgcCGUCCUgGc -3'
miRNA:   3'- -UCUCUCGu---UCGCUGGGGa--GCAGGAgC- -5'
21395 3' -57.6 NC_004812.1 + 80058 0.72 0.541227
Target:  5'- cGAGAGCAcggucgaGGCGGCCguCCgggcccagggCGUCCUCGc -3'
miRNA:   3'- uCUCUCGU-------UCGCUGG--GGa---------GCAGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 133283 0.72 0.542207
Target:  5'- aGGuGAGCcccGCGcACCCCUCGcCCUCc -3'
miRNA:   3'- -UCuCUCGuu-CGC-UGGGGAGCaGGAGc -5'
21395 3' -57.6 NC_004812.1 + 117966 0.72 0.542207
Target:  5'- gGGGGAgGCGGGCG-CCCC-CGgCCUCGc -3'
miRNA:   3'- -UCUCU-CGUUCGCuGGGGaGCaGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 97539 0.72 0.542207
Target:  5'- gGGGGGGUucGUGA-CCUUCGUCCUCu -3'
miRNA:   3'- -UCUCUCGuuCGCUgGGGAGCAGGAGc -5'
21395 3' -57.6 NC_004812.1 + 148867 0.72 0.542207
Target:  5'- gGGGGAgGCGGGCG-CCCC-CGgCCUCGc -3'
miRNA:   3'- -UCUCU-CGUUCGCuGGGGaGCaGGAGC- -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.