miRNA display CGI


Results 1 - 20 of 21 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
11139 5' -58.1 NC_002794.1 + 23893 0.66 0.878838
Target:  5'- -gCCGAGGGccCGggagccgagugcagcAGCGUgGGCGAGCGa -3'
miRNA:   3'- aaGGCUCCCa-GC---------------UCGCA-CUGCUCGUc -5'
11139 5' -58.1 NC_002794.1 + 132580 0.66 0.876051
Target:  5'- -aCCGGGuGGgccgcuucacCGGGCGUGACGugguucAGCGGg -3'
miRNA:   3'- aaGGCUC-CCa---------GCUCGCACUGC------UCGUC- -5'
11139 5' -58.1 NC_002794.1 + 105825 0.66 0.876051
Target:  5'- -aCCGGGucGGUCGAGCGagcggGACcGAGgGGa -3'
miRNA:   3'- aaGGCUC--CCAGCUCGCa----CUG-CUCgUC- -5'
11139 5' -58.1 NC_002794.1 + 38139 0.66 0.868939
Target:  5'- --gCGuGGaGUCGAGCaggagGUaGGCGAGCAGg -3'
miRNA:   3'- aagGCuCC-CAGCUCG-----CA-CUGCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 143287 0.66 0.861626
Target:  5'- -gCCGcucGGGGUCGGGCGggugcaGCGcGGCGGg -3'
miRNA:   3'- aaGGC---UCCCAGCUCGCac----UGC-UCGUC- -5'
11139 5' -58.1 NC_002794.1 + 138755 0.67 0.838533
Target:  5'- cUCCGGGGGcCGAGuCGcGGCGGuCGGu -3'
miRNA:   3'- aAGGCUCCCaGCUC-GCaCUGCUcGUC- -5'
11139 5' -58.1 NC_002794.1 + 129246 0.67 0.829656
Target:  5'- cUCCGGcggacucGGGUCGAGCGccucgucgUGAGCGGg -3'
miRNA:   3'- aAGGCU-------CCCAGCUCGCacu-----GCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 138652 0.67 0.825552
Target:  5'- gUCCGGucGGUCGAucugcggauuggucuGCGUGGCG-GCGGg -3'
miRNA:   3'- aAGGCUc-CCAGCU---------------CGCACUGCuCGUC- -5'
11139 5' -58.1 NC_002794.1 + 183680 0.67 0.822238
Target:  5'- -gCCGAcGGGUCGAGCGcccgccGCGcGCGGc -3'
miRNA:   3'- aaGGCU-CCCAGCUCGCac----UGCuCGUC- -5'
11139 5' -58.1 NC_002794.1 + 182285 0.67 0.822238
Target:  5'- cUCCcaugacGGGG-CGGGUG-GACGGGCAGa -3'
miRNA:   3'- aAGGc-----UCCCaGCUCGCaCUGCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 123807 0.67 0.805289
Target:  5'- gUUCGGGGGc---GCG-GACGAGCAGg -3'
miRNA:   3'- aAGGCUCCCagcuCGCaCUGCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 14452 0.68 0.77877
Target:  5'- cUCCGcGGG-CGAcCGUGuCGAGCGGc -3'
miRNA:   3'- aAGGCuCCCaGCUcGCACuGCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 119949 0.68 0.768754
Target:  5'- -gCCGcgccagcaGGUCGAGCGUgcucuggugguucGACGAGCGGa -3'
miRNA:   3'- aaGGCuc------CCAGCUCGCA-------------CUGCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 113660 0.68 0.751131
Target:  5'- gUCCucGGcGUCcAGCGcGGCGAGCAGg -3'
miRNA:   3'- aAGGcuCC-CAGcUCGCaCUGCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 145603 0.69 0.703196
Target:  5'- -cCCGcGGaGUCGGGCGcGACGAGgAGc -3'
miRNA:   3'- aaGGCuCC-CAGCUCGCaCUGCUCgUC- -5'
11139 5' -58.1 NC_002794.1 + 76785 0.7 0.673685
Target:  5'- gUCCGAGc--CGGGCG-GGCGAGCGGc -3'
miRNA:   3'- aAGGCUCccaGCUCGCaCUGCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 139839 0.7 0.647867
Target:  5'- -aCCaAGaGGUUGAGCGggaggccgacgcugaUGACGAGCAGg -3'
miRNA:   3'- aaGGcUC-CCAGCUCGC---------------ACUGCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 141664 0.71 0.584237
Target:  5'- -gCCGGcGGGUCGAGCGaaGACGGGUc- -3'
miRNA:   3'- aaGGCU-CCCAGCUCGCa-CUGCUCGuc -5'
11139 5' -58.1 NC_002794.1 + 91872 0.72 0.516196
Target:  5'- -cCCGGGGGUgGcGGCGgcggccgcGACGAGCAGu -3'
miRNA:   3'- aaGGCUCCCAgC-UCGCa-------CUGCUCGUC- -5'
11139 5' -58.1 NC_002794.1 + 101621 0.73 0.505774
Target:  5'- --gCGGGGGUgccguuucguccgCGAGCGUgGGCGGGCGGg -3'
miRNA:   3'- aagGCUCCCA-------------GCUCGCA-CUGCUCGUC- -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.