miRNA display CGI


Results 1 - 20 of 63 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
1706 3' -67.3 NC_001347.2 + 149432 0.66 0.49257
Target:  5'- gUGCCCGacgaCAGcUCGUGGCCG-CGCUAUc -3'
miRNA:   3'- -ACGGGC----GUCcGGCACCGGCgGCGGUA- -5'
1706 3' -67.3 NC_001347.2 + 2084 0.66 0.49257
Target:  5'- gUGCcuCCGCA-GCCGUacGG-CGCCGCCGg -3'
miRNA:   3'- -ACG--GGCGUcCGGCA--CCgGCGGCGGUa -5'
1706 3' -67.3 NC_001347.2 + 31674 0.66 0.483807
Target:  5'- gGUCgGCuGGUCG-GGCCGUCGCgGa -3'
miRNA:   3'- aCGGgCGuCCGGCaCCGGCGGCGgUa -5'
1706 3' -67.3 NC_001347.2 + 118531 0.66 0.483807
Target:  5'- gGCCCucggcguacuGCAGGCUGUgGGUgGCgUGCCAc -3'
miRNA:   3'- aCGGG----------CGUCCGGCA-CCGgCG-GCGGUa -5'
1706 3' -67.3 NC_001347.2 + 96907 0.66 0.466509
Target:  5'- aGUCgGCuaacaaAGcCCG-GGCCGCCGCCAg -3'
miRNA:   3'- aCGGgCG------UCcGGCaCCGGCGGCGGUa -5'
1706 3' -67.3 NC_001347.2 + 13521 0.66 0.457981
Target:  5'- -aCCCGcCGGGCgGcccgGGCCGCCGUg-- -3'
miRNA:   3'- acGGGC-GUCCGgCa---CCGGCGGCGgua -5'
1706 3' -67.3 NC_001347.2 + 208715 0.66 0.457981
Target:  5'- gGCCaC-CAGcGCCGUGGUCucgGUCGCCAg -3'
miRNA:   3'- aCGG-GcGUC-CGGCACCGG---CGGCGGUa -5'
1706 3' -67.3 NC_001347.2 + 38069 0.66 0.449537
Target:  5'- cGCCCGCGcGCagaaaGUGcgacagcuCCGCCGCCAg -3'
miRNA:   3'- aCGGGCGUcCGg----CACc-------GGCGGCGGUa -5'
1706 3' -67.3 NC_001347.2 + 189884 0.67 0.44118
Target:  5'- cUGUCCgGCAGcaGCCG-GGCCGCCucgaccacGCCGa -3'
miRNA:   3'- -ACGGG-CGUC--CGGCaCCGGCGG--------CGGUa -5'
1706 3' -67.3 NC_001347.2 + 182118 0.67 0.44118
Target:  5'- cGuCCCGCGGGUcuuCGacGUCGCUGCCGUa -3'
miRNA:   3'- aC-GGGCGUCCG---GCacCGGCGGCGGUA- -5'
1706 3' -67.3 NC_001347.2 + 128337 0.67 0.44118
Target:  5'- -aCCCGCG---UGUGGCCGCCGCUg- -3'
miRNA:   3'- acGGGCGUccgGCACCGGCGGCGGua -5'
1706 3' -67.3 NC_001347.2 + 78708 0.67 0.440349
Target:  5'- cGUCCGCuGGCgGUGGaagacaaCCGCCuggugGCCAa -3'
miRNA:   3'- aCGGGCGuCCGgCACC-------GGCGG-----CGGUa -5'
1706 3' -67.3 NC_001347.2 + 39354 0.67 0.436208
Target:  5'- gGCCCGCggGGuucuacccgguggacGCCGUGGCCcggcGUCGUCGUa -3'
miRNA:   3'- aCGGGCG--UC---------------CGGCACCGG----CGGCGGUA- -5'
1706 3' -67.3 NC_001347.2 + 136088 0.67 0.432912
Target:  5'- gGCCCGCGGacggaccggcGCCG-GGCCuCgGCCGg -3'
miRNA:   3'- aCGGGCGUC----------CGGCaCCGGcGgCGGUa -5'
1706 3' -67.3 NC_001347.2 + 1932 0.67 0.432912
Target:  5'- cUGCCCGCGcgguGGCUG-GGCUGCgCGgCGg -3'
miRNA:   3'- -ACGGGCGU----CCGGCaCCGGCG-GCgGUa -5'
1706 3' -67.3 NC_001347.2 + 89677 0.67 0.424734
Target:  5'- cGCUCGUcucgaccgcacaAGcGCCGgccccGCCGCCGCCAc -3'
miRNA:   3'- aCGGGCG------------UC-CGGCac---CGGCGGCGGUa -5'
1706 3' -67.3 NC_001347.2 + 136485 0.67 0.424734
Target:  5'- -uCCCGCGGGCCcUGGCCcGCgcaugCGCCc- -3'
miRNA:   3'- acGGGCGUCCGGcACCGG-CG-----GCGGua -5'
1706 3' -67.3 NC_001347.2 + 185343 0.67 0.424734
Target:  5'- gGUCCGUGcGaGCa--GGCCGCCGCCGUg -3'
miRNA:   3'- aCGGGCGU-C-CGgcaCCGGCGGCGGUA- -5'
1706 3' -67.3 NC_001347.2 + 222751 0.67 0.416649
Target:  5'- cGCugCCGC-GGCCauuGCCGCCGCCGc -3'
miRNA:   3'- aCG--GGCGuCCGGcacCGGCGGCGGUa -5'
1706 3' -67.3 NC_001347.2 + 87583 0.67 0.416649
Target:  5'- aGCCCGU-GGCCGUGaGCaGaCCGCgGUg -3'
miRNA:   3'- aCGGGCGuCCGGCAC-CGgC-GGCGgUA- -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.