miRNA display CGI


Results 1 - 20 of 34 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
28035 3' -56 NC_005887.1 + 7209 0.7 0.372023
Target:  5'- -aCG-GCCGCCcguccgugGCGCCGGAUuCCGa -3'
miRNA:   3'- caGCaCGGCGGuua-----CGUGGUCUA-GGC- -5'
28035 3' -56 NC_005887.1 + 27195 0.66 0.557505
Target:  5'- uUCGccaUGCCGUCGA-GCGCCugcauggggucggucGGGUCCGu -3'
miRNA:   3'- cAGC---ACGGCGGUUaCGUGG---------------UCUAGGC- -5'
28035 3' -56 NC_005887.1 + 36832 0.66 0.552013
Target:  5'- -gCGUGCCugcugcgGCCGGUGCugCGG--CCGg -3'
miRNA:   3'- caGCACGG-------CGGUUACGugGUCuaGGC- -5'
28035 3' -56 NC_005887.1 + 13998 0.67 0.531301
Target:  5'- uUCGUGCUcgaaGCCAAUGCcgcGCCGGcgcagacgCCGa -3'
miRNA:   3'- cAGCACGG----CGGUUACG---UGGUCua------GGC- -5'
28035 3' -56 NC_005887.1 + 31984 0.67 0.520513
Target:  5'- cGUCG-GCaCGCCGuUGUACguGAUaCCGg -3'
miRNA:   3'- -CAGCaCG-GCGGUuACGUGguCUA-GGC- -5'
28035 3' -56 NC_005887.1 + 11043 0.67 0.520513
Target:  5'- -aCGUGaCCaCCGGUGCGCC-GAUgCCGg -3'
miRNA:   3'- caGCAC-GGcGGUUACGUGGuCUA-GGC- -5'
28035 3' -56 NC_005887.1 + 19498 0.68 0.488695
Target:  5'- -cCGgcgGCCGUCGAUgGUACCgAGAUCUGc -3'
miRNA:   3'- caGCa--CGGCGGUUA-CGUGG-UCUAGGC- -5'
28035 3' -56 NC_005887.1 + 38870 0.68 0.457819
Target:  5'- cGUCGUGCuCGaucauCAGcGCGCCAGGcCCGa -3'
miRNA:   3'- -CAGCACG-GCg----GUUaCGUGGUCUaGGC- -5'
28035 3' -56 NC_005887.1 + 813 0.68 0.44776
Target:  5'- -gCGUGCgCGCCGA-GCGCCucgcGGAUCUu -3'
miRNA:   3'- caGCACG-GCGGUUaCGUGG----UCUAGGc -5'
28035 3' -56 NC_005887.1 + 34850 0.66 0.607504
Target:  5'- gGUCGUGCCGCCGaggGUGUaguucaaGCgCAGGUagCGc -3'
miRNA:   3'- -CAGCACGGCGGU---UACG-------UG-GUCUAg-GC- -5'
28035 3' -56 NC_005887.1 + 21379 0.7 0.354499
Target:  5'- -gCGUGgCGCCAA-GCGCCAGcgCgGg -3'
miRNA:   3'- caGCACgGCGGUUaCGUGGUCuaGgC- -5'
28035 3' -56 NC_005887.1 + 25313 0.71 0.321229
Target:  5'- -gCGUGCCGCUgc-GCAUCcGAUCCGu -3'
miRNA:   3'- caGCACGGCGGuuaCGUGGuCUAGGC- -5'
28035 3' -56 NC_005887.1 + 27542 0.71 0.305491
Target:  5'- cGUCGcgGCCGCCAGauUG-AUCGGGUCCa -3'
miRNA:   3'- -CAGCa-CGGCGGUU--ACgUGGUCUAGGc -5'
28035 3' -56 NC_005887.1 + 24018 0.72 0.255087
Target:  5'- cGUCGcaUGUCGCCGAUGCGCCcccagugccgcgAGAUCa- -3'
miRNA:   3'- -CAGC--ACGGCGGUUACGUGG------------UCUAGgc -5'
28035 3' -56 NC_005887.1 + 40523 0.74 0.195147
Target:  5'- uUCGUGUCGCCGAagaUGCcguACCAGGUCgGc -3'
miRNA:   3'- cAGCACGGCGGUU---ACG---UGGUCUAGgC- -5'
28035 3' -56 NC_005887.1 + 32453 0.85 0.033236
Target:  5'- aUCGUGCCGCCGAccUGCACCggcuGGAUCCu -3'
miRNA:   3'- cAGCACGGCGGUU--ACGUGG----UCUAGGc -5'
28035 3' -56 NC_005887.1 + 22617 1.08 0.000662
Target:  5'- cGUCGUGCCGCCAAUGCACCAGAUCCGc -3'
miRNA:   3'- -CAGCACGGCGGUUACGUGGUCUAGGC- -5'
28035 3' -56 NC_005887.1 + 19227 0.67 0.499204
Target:  5'- ----cGUCGUguAUGCACCGGGUUCGa -3'
miRNA:   3'- cagcaCGGCGguUACGUGGUCUAGGC- -5'
28035 3' -56 NC_005887.1 + 24485 0.72 0.280828
Target:  5'- aUCGUGUCGUCGAUGCccggcaggaucuucGCCAGuUCCu -3'
miRNA:   3'- cAGCACGGCGGUUACG--------------UGGUCuAGGc -5'
28035 3' -56 NC_005887.1 + 14253 0.7 0.363188
Target:  5'- aUCuUGCCGCCGGUcuuaGCCAGAUCUa -3'
miRNA:   3'- cAGcACGGCGGUUAcg--UGGUCUAGGc -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.