miRNA display CGI


Results 1 - 20 of 22 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
1482 3' -52.6 NC_001335.1 + 47167 0.66 0.848403
Target:  5'- gACGugGAUGCAGC-CGAcGcGGUCuGGc -3'
miRNA:   3'- aUGUugUUGCGUCGaGCUaC-CCAG-CC- -5'
1482 3' -52.6 NC_001335.1 + 20259 0.66 0.839527
Target:  5'- gGCGACGGC-CAGgUCGAgGGcGUCGa -3'
miRNA:   3'- aUGUUGUUGcGUCgAGCUaCC-CAGCc -5'
1482 3' -52.6 NC_001335.1 + 25053 0.66 0.839526
Target:  5'- --aGAUGACGcCAGCUCuggugcgugcguGGUGGGcCGGg -3'
miRNA:   3'- augUUGUUGC-GUCGAG------------CUACCCaGCC- -5'
1482 3' -52.6 NC_001335.1 + 18889 0.66 0.821099
Target:  5'- cACGGCGGCGUccAGaaCGAcGGGUCGa -3'
miRNA:   3'- aUGUUGUUGCG--UCgaGCUaCCCAGCc -5'
1482 3' -52.6 NC_001335.1 + 36199 0.66 0.811568
Target:  5'- gUGCAGguACgGCAGCUUGGUGGcuGUCa- -3'
miRNA:   3'- -AUGUUguUG-CGUCGAGCUACC--CAGcc -5'
1482 3' -52.6 NC_001335.1 + 17781 0.66 0.810603
Target:  5'- aAgGAUcuCGCGGCUgagcuguccagggCGAUGGaGUCGGg -3'
miRNA:   3'- aUgUUGuuGCGUCGA-------------GCUACC-CAGCC- -5'
1482 3' -52.6 NC_001335.1 + 23118 0.67 0.801839
Target:  5'- gACGACGGCGUcGUcuccgCGAUGGGUgCGa -3'
miRNA:   3'- aUGUUGUUGCGuCGa----GCUACCCA-GCc -5'
1482 3' -52.6 NC_001335.1 + 36562 0.68 0.739971
Target:  5'- cGCGAUGAUGCGGUUCGGcacGUCGGu -3'
miRNA:   3'- aUGUUGUUGCGUCGAGCUaccCAGCC- -5'
1482 3' -52.6 NC_001335.1 + 27059 0.68 0.729189
Target:  5'- gGCGACuGCGaCAGCaUCGA-GGGUCu- -3'
miRNA:   3'- aUGUUGuUGC-GUCG-AGCUaCCCAGcc -5'
1482 3' -52.6 NC_001335.1 + 48625 0.68 0.707334
Target:  5'- cGCGAagucucCAGCGCGGa--GAUGGGUgGGg -3'
miRNA:   3'- aUGUU------GUUGCGUCgagCUACCCAgCC- -5'
1482 3' -52.6 NC_001335.1 + 14059 0.69 0.696283
Target:  5'- gGCAGCGuguGCAGCgUCGGUGcGUUGGg -3'
miRNA:   3'- aUGUUGUug-CGUCG-AGCUACcCAGCC- -5'
1482 3' -52.6 NC_001335.1 + 12128 0.69 0.685168
Target:  5'- gGCGACGugGUcGCUCagGAU-GGUCGGa -3'
miRNA:   3'- aUGUUGUugCGuCGAG--CUAcCCAGCC- -5'
1482 3' -52.6 NC_001335.1 + 42417 0.69 0.651552
Target:  5'- --aGACGcACGCGGCUCGcgccGGUCGGc -3'
miRNA:   3'- augUUGU-UGCGUCGAGCuac-CCAGCC- -5'
1482 3' -52.6 NC_001335.1 + 37964 0.69 0.651552
Target:  5'- gGCGACGACGCcgguauggAGUUCGcccGGUCGGu -3'
miRNA:   3'- aUGUUGUUGCG--------UCGAGCuacCCAGCC- -5'
1482 3' -52.6 NC_001335.1 + 14817 0.69 0.650427
Target:  5'- --gGGCAGCGCAGCcaggucaUCGAUGGG-Ca- -3'
miRNA:   3'- augUUGUUGCGUCG-------AGCUACCCaGcc -5'
1482 3' -52.6 NC_001335.1 + 15133 0.69 0.639167
Target:  5'- aGCAGCGGCuuCAGCUCGAcGGucacaucGUCGGa -3'
miRNA:   3'- aUGUUGUUGc-GUCGAGCUaCC-------CAGCC- -5'
1482 3' -52.6 NC_001335.1 + 40324 0.7 0.617765
Target:  5'- gUugAuCAGCGCAGUUCGAU--GUCGGg -3'
miRNA:   3'- -AugUuGUUGCGUCGAGCUAccCAGCC- -5'
1482 3' -52.6 NC_001335.1 + 14272 0.72 0.475789
Target:  5'- aACGACGACGCAGUguugacUGcgGcGGUCGGc -3'
miRNA:   3'- aUGUUGUUGCGUCGa-----GCuaC-CCAGCC- -5'
1482 3' -52.6 NC_001335.1 + 6618 0.73 0.455282
Target:  5'- gUACAaauGCGGC-CAGCUCGGgccuUGGGUCGa -3'
miRNA:   3'- -AUGU---UGUUGcGUCGAGCU----ACCCAGCc -5'
1482 3' -52.6 NC_001335.1 + 3705 0.73 0.425446
Target:  5'- ---cGCGGCGCucGUUCGAUGaGGUCGGu -3'
miRNA:   3'- auguUGUUGCGu-CGAGCUAC-CCAGCC- -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.