miRNA display CGI


Results 1 - 20 of 53 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
13351 3' -62.1 NC_003409.1 + 133020 0.8 0.073659
Target:  5'- -uCCAGGCCGGUccgcgGCGCCAGCGCCu- -3'
miRNA:   3'- acGGUCCGGUCGa----UGCGGUCGCGGuc -5'
13351 3' -62.1 NC_003409.1 + 132485 0.68 0.422531
Target:  5'- gGCCcuGCCccaggAGCUGCuuCCAGUGCCAGc -3'
miRNA:   3'- aCGGucCGG-----UCGAUGc-GGUCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 131445 0.67 0.52385
Target:  5'- gUGCCuugGGaGUCAGCUGCGCCuguuuucGUGCCc- -3'
miRNA:   3'- -ACGG---UC-CGGUCGAUGCGGu------CGCGGuc -5'
13351 3' -62.1 NC_003409.1 + 131235 1.08 0.000619
Target:  5'- cUGCCAGGCCAGCUACGCCAGCGCCAGg -3'
miRNA:   3'- -ACGGUCCGGUCGAUGCGGUCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 120212 0.66 0.533554
Target:  5'- cGuCCAGG-CGGCUGgcacacgggcCGUgAGCGCCAGc -3'
miRNA:   3'- aC-GGUCCgGUCGAU----------GCGgUCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 119967 0.66 0.543322
Target:  5'- aGCaCGcGCgCGGCgcccACGCCGGCGCCuGg -3'
miRNA:   3'- aCG-GUcCG-GUCGa---UGCGGUCGCGGuC- -5'
13351 3' -62.1 NC_003409.1 + 119796 0.74 0.199496
Target:  5'- gUGCCAGgcGCCGGCguggGCGCCGcGCGCguGc -3'
miRNA:   3'- -ACGGUC--CGGUCGa---UGCGGU-CGCGguC- -5'
13351 3' -62.1 NC_003409.1 + 118418 0.74 0.180808
Target:  5'- cGCCGGGUUccugGGgUGCGCC-GCGCCGGg -3'
miRNA:   3'- aCGGUCCGG----UCgAUGCGGuCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 118372 0.74 0.180808
Target:  5'- cGCCGGGUUccugGGgUGCGCC-GCGCCGGg -3'
miRNA:   3'- aCGGUCCGG----UCgAUGCGGuCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 118326 0.74 0.180808
Target:  5'- cGCCGGGUUccugGGgUGCGCC-GCGCCGGg -3'
miRNA:   3'- aCGGUCCGG----UCgAUGCGGuCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 116425 0.7 0.348972
Target:  5'- cGcCCGGGgC-GCgaaGCGCCAGCGUCAGc -3'
miRNA:   3'- aC-GGUCCgGuCGa--UGCGGUCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 113415 0.71 0.298379
Target:  5'- aGCCAGcGCgcaacaCGGCgauCGCCuGCGCCAGc -3'
miRNA:   3'- aCGGUC-CG------GUCGau-GCGGuCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 112155 0.72 0.241935
Target:  5'- gGCCAGGCCcugcauccGGCaccACGCCcgGGgGCCAGg -3'
miRNA:   3'- aCGGUCCGG--------UCGa--UGCGG--UCgCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 110071 0.66 0.553148
Target:  5'- cGCCuGGCCgaccaGGCgcuCGCCGGUGgCAa -3'
miRNA:   3'- aCGGuCCGG-----UCGau-GCGGUCGCgGUc -5'
13351 3' -62.1 NC_003409.1 + 110039 0.67 0.52385
Target:  5'- gGCCGuagggguacgguGGCaguGUUGCGCCGGgCGCCAc -3'
miRNA:   3'- aCGGU------------CCGgu-CGAUGCGGUC-GCGGUc -5'
13351 3' -62.1 NC_003409.1 + 109926 0.73 0.214596
Target:  5'- gGCCAGGCgCAGgaACGCUcuggcGGCGCUGGc -3'
miRNA:   3'- aCGGUCCG-GUCgaUGCGG-----UCGCGGUC- -5'
13351 3' -62.1 NC_003409.1 + 109538 0.74 0.18995
Target:  5'- gGUCAGGUCGcGCgGgGCCAGCGCCAc -3'
miRNA:   3'- aCGGUCCGGU-CGaUgCGGUCGCGGUc -5'
13351 3' -62.1 NC_003409.1 + 109096 0.66 0.553148
Target:  5'- -cCCGGaGCCGGCUGCGUCuG-GCCGa -3'
miRNA:   3'- acGGUC-CGGUCGAUGCGGuCgCGGUc -5'
13351 3' -62.1 NC_003409.1 + 108997 0.68 0.458079
Target:  5'- cGCCcGGCCuGCgucccaGCCGGCgGCCAc -3'
miRNA:   3'- aCGGuCCGGuCGaug---CGGUCG-CGGUc -5'
13351 3' -62.1 NC_003409.1 + 108910 0.68 0.458079
Target:  5'- aGCUcGGCCAGCUuuuccugcAgGCCAGCuaGCUGGg -3'
miRNA:   3'- aCGGuCCGGUCGA--------UgCGGUCG--CGGUC- -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.