miRNA display CGI


Results 1 - 20 of 32 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
12678 3' -52.4 NC_003345.1 + 2138 0.66 0.903939
Target:  5'- cGGCGAGAGugacaUCGCuaAGUgGUGcgaagCGCCc -3'
miRNA:   3'- aUCGCUCUC-----AGCG--UCAgCAUua---GCGG- -5'
12678 3' -52.4 NC_003345.1 + 9479 0.66 0.929197
Target:  5'- gAGCGucggcuuggucuuccGGGUCGUGGUaGUAucgGUCGCCa -3'
miRNA:   3'- aUCGCu--------------CUCAGCGUCAgCAU---UAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 10260 0.7 0.745582
Target:  5'- ---aGGGAGUagaaGUAGUCGUAGUCGgCu -3'
miRNA:   3'- aucgCUCUCAg---CGUCAGCAUUAGCgG- -5'
12678 3' -52.4 NC_003345.1 + 10911 0.66 0.928636
Target:  5'- cGGgGAGGGa-GCAGUCcuuacaGUuGUCGCCg -3'
miRNA:   3'- aUCgCUCUCagCGUCAG------CAuUAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 11006 0.66 0.897086
Target:  5'- -cGUGAGAGcCGCuauGUCGgcguucAUCGCUc -3'
miRNA:   3'- auCGCUCUCaGCGu--CAGCau----UAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 12403 0.69 0.805498
Target:  5'- gAGUGGGAGUCGCuGaCGgagGAcaaCGCCa -3'
miRNA:   3'- aUCGCUCUCAGCGuCaGCa--UUa--GCGG- -5'
12678 3' -52.4 NC_003345.1 + 12588 0.67 0.858935
Target:  5'- cGGCucGGGAGUaCGCu-UCGUAgagGUCGCCg -3'
miRNA:   3'- aUCG--CUCUCA-GCGucAGCAU---UAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 14636 0.66 0.928636
Target:  5'- aUAGUcGGGGUCGCAcGgccuccacUCGUGGUCGUg -3'
miRNA:   3'- -AUCGcUCUCAGCGU-C--------AGCAUUAGCGg -5'
12678 3' -52.4 NC_003345.1 + 15328 0.7 0.703199
Target:  5'- uUGGUGAG-GUCGgGGccgaCGUGGUUGCCg -3'
miRNA:   3'- -AUCGCUCuCAGCgUCa---GCAUUAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 19940 0.73 0.550543
Target:  5'- -cGUGGuAGUCGCGGUCGUcGUCGUUa -3'
miRNA:   3'- auCGCUcUCAGCGUCAGCAuUAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 20466 0.73 0.550543
Target:  5'- gGGUucGAGAGUCGCu-UCGaGGUCGCCg -3'
miRNA:   3'- aUCG--CUCUCAGCGucAGCaUUAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 21767 0.66 0.922873
Target:  5'- -cGUcGGAGUCaCcGUCGUcGUCGCCg -3'
miRNA:   3'- auCGcUCUCAGcGuCAGCAuUAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 32769 0.66 0.903939
Target:  5'- -uGCGAGAGa-GCGGUCGgcGUUGaCa -3'
miRNA:   3'- auCGCUCUCagCGUCAGCauUAGCgG- -5'
12678 3' -52.4 NC_003345.1 + 34397 0.69 0.795902
Target:  5'- cGGUGAGcuGGUCGCugaGGUCGUccAGUUGCg -3'
miRNA:   3'- aUCGCUC--UCAGCG---UCAGCA--UUAGCGg -5'
12678 3' -52.4 NC_003345.1 + 34410 0.66 0.928636
Target:  5'- gAGgGAcAGUCGCAGacCGgacUCGCCg -3'
miRNA:   3'- aUCgCUcUCAGCGUCa-GCauuAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 36004 0.67 0.882587
Target:  5'- gGGaaGGAGUCGCcccGGUC-UGGUCGCUg -3'
miRNA:   3'- aUCgcUCUCAGCG---UCAGcAUUAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 39325 0.71 0.648747
Target:  5'- cGGUGAGAGaaucccgaauuUCGuUAGUCGUGuaccacccGUCGCCg -3'
miRNA:   3'- aUCGCUCUC-----------AGC-GUCAGCAU--------UAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 41219 0.67 0.880323
Target:  5'- cGGCGAGguuucggucuucguAGUCuCGGUCGaGGUCGUCc -3'
miRNA:   3'- aUCGCUC--------------UCAGcGUCAGCaUUAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 41676 0.7 0.703199
Target:  5'- aAGCGGGAGggcCGUAGUag-AAUCGUCg -3'
miRNA:   3'- aUCGCUCUCa--GCGUCAgcaUUAGCGG- -5'
12678 3' -52.4 NC_003345.1 + 42955 0.68 0.833163
Target:  5'- aUAGUGA-AGUCGCGGUUGUccucuuUCGCa -3'
miRNA:   3'- -AUCGCUcUCAGCGUCAGCAuu----AGCGg -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.