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
23505 3' -60.7 NC_005259.1 + 35737 0.69 0.351971
Target:  5'- ---aCCCGGCGC--UGCCCGgccCCACGu -3'
miRNA:   3'- gcaaGGGCCGUGccACGGGCa--GGUGC- -5'
23505 3' -60.7 NC_005259.1 + 19171 0.66 0.542531
Target:  5'- gGUUCgUCGGCgcucaACGGUGCCC-UCgACa -3'
miRNA:   3'- gCAAG-GGCCG-----UGCCACGGGcAGgUGc -5'
23505 3' -60.7 NC_005259.1 + 40687 0.66 0.502924
Target:  5'- gGUgcUCaCCGGCccgaugaucGgGGUGCCCGccaCCACGg -3'
miRNA:   3'- gCA--AG-GGCCG---------UgCCACGGGCa--GGUGC- -5'
23505 3' -60.7 NC_005259.1 + 3166 0.67 0.49225
Target:  5'- gGUgaugCCCGGCGaugucaaggucguCGGUGCgCGcaCCACGa -3'
miRNA:   3'- gCAa---GGGCCGU-------------GCCACGgGCa-GGUGC- -5'
23505 3' -60.7 NC_005259.1 + 40561 0.67 0.483595
Target:  5'- gCGcgCCC-GCGCGGUGUugCUGUCgGCGg -3'
miRNA:   3'- -GCaaGGGcCGUGCCACG--GGCAGgUGC- -5'
23505 3' -60.7 NC_005259.1 + 24051 0.67 0.483595
Target:  5'- aCGUcgUCGGCGCGGUGCUcaaucuCGUgcaCCGCGa -3'
miRNA:   3'- -GCAagGGCCGUGCCACGG------GCA---GGUGC- -5'
23505 3' -60.7 NC_005259.1 + 24814 0.68 0.43693
Target:  5'- gGUgcCCCGGCACGccGUGCCCGcaCCGa- -3'
miRNA:   3'- gCAa-GGGCCGUGC--CACGGGCa-GGUgc -5'
23505 3' -60.7 NC_005259.1 + 30201 0.68 0.419
Target:  5'- ---cCCCGu--CGGUGCCCG-CCGCGa -3'
miRNA:   3'- gcaaGGGCcguGCCACGGGCaGGUGC- -5'
23505 3' -60.7 NC_005259.1 + 22464 0.68 0.410205
Target:  5'- uCGUgcgCCC-GCGCGGUcugaCCGUCCGCa -3'
miRNA:   3'- -GCAa--GGGcCGUGCCAcg--GGCAGGUGc -5'
23505 3' -60.7 NC_005259.1 + 9130 0.75 0.14575
Target:  5'- ---cCCCGGUACGGgcagccgugcucgUGCCCGUCgACGg -3'
miRNA:   3'- gcaaGGGCCGUGCC-------------ACGGGCAGgUGC- -5'
23505 3' -60.7 NC_005259.1 + 45630 0.69 0.34961
Target:  5'- cCGggCCgGGCAgcgcgcCGGUGCcgccgugaacaccgCCGUCCGCGu -3'
miRNA:   3'- -GCaaGGgCCGU------GCCACG--------------GGCAGGUGC- -5'
23505 3' -60.7 NC_005259.1 + 34579 0.69 0.344145
Target:  5'- gGUUCUCGgacaggcagacGCGCGGUGUcgacaucacUCGUCCGCGa -3'
miRNA:   3'- gCAAGGGC-----------CGUGCCACG---------GGCAGGUGC- -5'
23505 3' -60.7 NC_005259.1 + 20516 0.7 0.306911
Target:  5'- aCGgugUCCCGaGCACgGGUGCgCUGcCCGCa -3'
miRNA:   3'- -GCa--AGGGC-CGUG-CCACG-GGCaGGUGc -5'
23505 3' -60.7 NC_005259.1 + 37275 0.7 0.306911
Target:  5'- aGgccgCCCGGCaggacuugcaugGCGGUGCCCG-CCGgGu -3'
miRNA:   3'- gCaa--GGGCCG------------UGCCACGGGCaGGUgC- -5'
23505 3' -60.7 NC_005259.1 + 37060 0.71 0.28609
Target:  5'- ---cCCaCGGCgGCGGUGuCCaCGUCCACGc -3'
miRNA:   3'- gcaaGG-GCCG-UGCCAC-GG-GCAGGUGC- -5'
23505 3' -60.7 NC_005259.1 + 19963 0.73 0.203491
Target:  5'- aCGgcggCUCGGCGgugugGGUGCCCGUCUACa -3'
miRNA:   3'- -GCaa--GGGCCGUg----CCACGGGCAGGUGc -5'
23505 3' -60.7 NC_005259.1 + 27373 0.74 0.166206
Target:  5'- gGUgCCCGGCACGGUGaCCGgCgGCGg -3'
miRNA:   3'- gCAaGGGCCGUGCCACgGGCaGgUGC- -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.