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
33069 5' -60.4 NC_007497.1 + 31440 0.66 0.42278
Target:  5'- -gGGCGCUCaauaagggcGACUGGGCGACauacauaUCCg -3'
miRNA:   3'- caCCGCGAGc--------UUGGCCCGCUGc------AGGa -5'
33069 5' -60.4 NC_007497.1 + 42534 0.66 0.42278
Target:  5'- -aGGC-CUCGAcACCGa-CGACGUCCa -3'
miRNA:   3'- caCCGcGAGCU-UGGCccGCUGCAGGa -5'
33069 5' -60.4 NC_007497.1 + 15768 0.66 0.413559
Target:  5'- -gGGUGCUCGGAgugaCGGGUgGGCG-CCg -3'
miRNA:   3'- caCCGCGAGCUUg---GCCCG-CUGCaGGa -5'
33069 5' -60.4 NC_007497.1 + 40574 0.66 0.404463
Target:  5'- -cGGCGCaUGGACCGGGaauaccCGGCGcgcgCCa -3'
miRNA:   3'- caCCGCGaGCUUGGCCC------GCUGCa---GGa -5'
33069 5' -60.4 NC_007497.1 + 12795 0.66 0.386656
Target:  5'- -gGGCGcCUCaAGCCGGcGCGGCGgcUCUa -3'
miRNA:   3'- caCCGC-GAGcUUGGCC-CGCUGC--AGGa -5'
33069 5' -60.4 NC_007497.1 + 31321 0.67 0.360932
Target:  5'- -gGGCGUguccuGCUGGGCGGCGcuUCCg -3'
miRNA:   3'- caCCGCGagcu-UGGCCCGCUGC--AGGa -5'
33069 5' -60.4 NC_007497.1 + 33457 0.67 0.360932
Target:  5'- -cGGCGCccguucCGAGCCGGaaaGCaGGCGUCUg -3'
miRNA:   3'- caCCGCGa-----GCUUGGCC---CG-CUGCAGGa -5'
33069 5' -60.4 NC_007497.1 + 30460 0.67 0.344457
Target:  5'- -cGGCGC-CGGcuGCCuGGCGuccgACGUCCg -3'
miRNA:   3'- caCCGCGaGCU--UGGcCCGC----UGCAGGa -5'
33069 5' -60.4 NC_007497.1 + 17582 0.67 0.344457
Target:  5'- -cGGCGCgugcaaGuuccGCgCGGGCGGCGUCUc -3'
miRNA:   3'- caCCGCGag----Cu---UG-GCCCGCUGCAGGa -5'
33069 5' -60.4 NC_007497.1 + 4622 0.68 0.320772
Target:  5'- -cGGCGCUCGuuGCaUGGGCGAagGUCg- -3'
miRNA:   3'- caCCGCGAGCu-UG-GCCCGCUg-CAGga -5'
33069 5' -60.4 NC_007497.1 + 40140 0.68 0.305672
Target:  5'- -aGGCGCacgUGAAgCGcGGCGACGUgCa -3'
miRNA:   3'- caCCGCGa--GCUUgGC-CCGCUGCAgGa -5'
33069 5' -60.4 NC_007497.1 + 35350 0.68 0.291122
Target:  5'- aGUGcGuCGCUUGcAGCCGGGCGGCucGUCa- -3'
miRNA:   3'- -CAC-C-GCGAGC-UUGGCCCGCUG--CAGga -5'
33069 5' -60.4 NC_007497.1 + 3803 0.68 0.291122
Target:  5'- -aGGCGCUCGGucgacugaagGCCGGcGCGAUGa--- -3'
miRNA:   3'- caCCGCGAGCU----------UGGCC-CGCUGCagga -5'
33069 5' -60.4 NC_007497.1 + 29088 0.69 0.257133
Target:  5'- -aGGCGCgCGAcaaCGGGCuGACGUUCg -3'
miRNA:   3'- caCCGCGaGCUug-GCCCG-CUGCAGGa -5'
33069 5' -60.4 NC_007497.1 + 41476 0.7 0.238341
Target:  5'- -aGGCGCUCGGugCcGGCGGacaGUCUc -3'
miRNA:   3'- caCCGCGAGCUugGcCCGCUg--CAGGa -5'
33069 5' -60.4 NC_007497.1 + 32873 0.7 0.232337
Target:  5'- uUGGCGUguuggcgCGAGCCGGGCGcuCGcUCUg -3'
miRNA:   3'- cACCGCGa------GCUUGGCCCGCu-GC-AGGa -5'
33069 5' -60.4 NC_007497.1 + 23881 0.7 0.220711
Target:  5'- -cGGCGUgaagCGcuGGCCGGcGCGcACGUCCUu -3'
miRNA:   3'- caCCGCGa---GC--UUGGCC-CGC-UGCAGGA- -5'
33069 5' -60.4 NC_007497.1 + 17230 0.71 0.204206
Target:  5'- -aGGCagacGCUCGGGCCGGGCuGACGg--- -3'
miRNA:   3'- caCCG----CGAGCUUGGCCCG-CUGCagga -5'
33069 5' -60.4 NC_007497.1 + 16856 0.71 0.193805
Target:  5'- -cGGCGCU-GAugCGGGCugcuCGUCCg -3'
miRNA:   3'- caCCGCGAgCUugGCCCGcu--GCAGGa -5'
33069 5' -60.4 NC_007497.1 + 37765 0.72 0.165347
Target:  5'- aUGGCGCUUggcgGAGCgaCGGGCGGCaaGUCCg -3'
miRNA:   3'- cACCGCGAG----CUUG--GCCCGCUG--CAGGa -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.