miRNA display CGI


Results 1 - 20 of 29 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
27314 3' -49.2 NC_005856.1 + 91278 0.66 0.991777
Target:  5'- uUCAUcgaggcGCAugGAggaaaAGUGCCGCC-CCu -3'
miRNA:   3'- -AGUAaau---CGUugUU-----UCGCGGCGGaGG- -5'
27314 3' -49.2 NC_005856.1 + 44868 0.66 0.99051
Target:  5'- uUCAggUGGCAaugcuGCAcGGCGCa-UCUCCa -3'
miRNA:   3'- -AGUaaAUCGU-----UGUuUCGCGgcGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 2038 0.66 0.989095
Target:  5'- aUCA-UUGGCGGCcauuAG-GCCGCCUUUu -3'
miRNA:   3'- -AGUaAAUCGUUGuu--UCgCGGCGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 87877 0.66 0.989095
Target:  5'- gUCAUUUaAGCuGCAAAGUGCUgguGCUUUa -3'
miRNA:   3'- -AGUAAA-UCGuUGUUUCGCGG---CGGAGg -5'
27314 3' -49.2 NC_005856.1 + 21461 0.66 0.985778
Target:  5'- aUCAUUU-GCAu---GGUGCCGCC-CUg -3'
miRNA:   3'- -AGUAAAuCGUuguuUCGCGGCGGaGG- -5'
27314 3' -49.2 NC_005856.1 + 60995 0.66 0.985778
Target:  5'- gUCAguagaGGCAAUuuugccAGUGCCGCUUUCg -3'
miRNA:   3'- -AGUaaa--UCGUUGuu----UCGCGGCGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 64193 0.67 0.983854
Target:  5'- -----gAGUGACu--GCGCCGCCaCCu -3'
miRNA:   3'- aguaaaUCGUUGuuuCGCGGCGGaGG- -5'
27314 3' -49.2 NC_005856.1 + 1828 0.67 0.983854
Target:  5'- aUCAcUUUAGCAAaaccGCGCCGUgCUUCu -3'
miRNA:   3'- -AGU-AAAUCGUUguuuCGCGGCG-GAGG- -5'
27314 3' -49.2 NC_005856.1 + 73355 0.67 0.979422
Target:  5'- -----cGGCAauguGCGGGGCGUugguauuaaCGCCUCCc -3'
miRNA:   3'- aguaaaUCGU----UGUUUCGCG---------GCGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 81145 0.67 0.979422
Target:  5'- -aAUUcGGUAAgGAGGUGCCGCUUUUc -3'
miRNA:   3'- agUAAaUCGUUgUUUCGCGGCGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 48843 0.67 0.979179
Target:  5'- aUCAUgaaauagUUAGCAAUu--GCGCCGgggaUCUCCc -3'
miRNA:   3'- -AGUA-------AAUCGUUGuuuCGCGGC----GGAGG- -5'
27314 3' -49.2 NC_005856.1 + 26619 0.67 0.975272
Target:  5'- aUCAUUggcuGCcGCAuuAAGCGCCGUCagaacauuacgcauaUCCg -3'
miRNA:   3'- -AGUAAau--CGuUGU--UUCGCGGCGG---------------AGG- -5'
27314 3' -49.2 NC_005856.1 + 20819 0.68 0.971167
Target:  5'- ----aUAGC-GCAAAuuGCaCCGCCUCCu -3'
miRNA:   3'- aguaaAUCGuUGUUU--CGcGGCGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 45760 0.68 0.967949
Target:  5'- gUC-UUUGGCAAaGAAGUcuGCCcCCUCCa -3'
miRNA:   3'- -AGuAAAUCGUUgUUUCG--CGGcGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 67160 0.68 0.967949
Target:  5'- cUCGgc--GCAAUAuuccGGCGCaCGCCUUCg -3'
miRNA:   3'- -AGUaaauCGUUGUu---UCGCG-GCGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 13529 0.68 0.964484
Target:  5'- cCAUugUUGGCuuu--GGCuGCCGCUUCCg -3'
miRNA:   3'- aGUA--AAUCGuuguuUCG-CGGCGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 81823 0.68 0.960765
Target:  5'- cUAUUUGGUAuccACAGGGCaCCGCUaCCa -3'
miRNA:   3'- aGUAAAUCGU---UGUUUCGcGGCGGaGG- -5'
27314 3' -49.2 NC_005856.1 + 69360 0.69 0.948021
Target:  5'- -gGUUUAGCucaguuggUAGAGCGCCuGCCUUg -3'
miRNA:   3'- agUAAAUCGuu------GUUUCGCGG-CGGAGg -5'
27314 3' -49.2 NC_005856.1 + 17071 0.69 0.943227
Target:  5'- -----aGGCGGCAuuGGCGgguCCGUCUCCg -3'
miRNA:   3'- aguaaaUCGUUGUu-UCGC---GGCGGAGG- -5'
27314 3' -49.2 NC_005856.1 + 16660 0.7 0.927162
Target:  5'- uUCAUgu-GUGugAuuGUGCCGCCgUCCa -3'
miRNA:   3'- -AGUAaauCGUugUuuCGCGGCGG-AGG- -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.