miRNA display CGI


Results 1 - 17 of 17 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
21887 3' -49.8 NC_004902.1 + 33668 0.66 0.901206
Target:  5'- uGGCAgaucuUGGCAGGAGAGUaagggauaucacaagGCAGuGCa -3'
miRNA:   3'- gUCGU-----ACCGUCUUUUCAcaa------------CGUC-CG- -5'
21887 3' -49.8 NC_004902.1 + 25917 0.66 0.891386
Target:  5'- aGGCAgaucGGCAGGcacAAGauugGUUGCGGaGCg -3'
miRNA:   3'- gUCGUa---CCGUCUu--UUCa---CAACGUC-CG- -5'
21887 3' -49.8 NC_004902.1 + 29875 0.66 0.875281
Target:  5'- aAGCA--GCGGAugAAAGaGUUGUGGGCg -3'
miRNA:   3'- gUCGUacCGUCU--UUUCaCAACGUCCG- -5'
21887 3' -49.8 NC_004902.1 + 39377 0.67 0.866789
Target:  5'- uGGCGU-GCAGggG-GUG-UGCuGGCa -3'
miRNA:   3'- gUCGUAcCGUCuuUuCACaACGuCCG- -5'
21887 3' -49.8 NC_004902.1 + 38250 0.67 0.858016
Target:  5'- -uGCGUGGCAaGGAAGUGacGCAGa- -3'
miRNA:   3'- guCGUACCGUcUUUUCACaaCGUCcg -5'
21887 3' -49.8 NC_004902.1 + 30432 0.67 0.858016
Target:  5'- aAGCGUGGCA---------UGCAGGCa -3'
miRNA:   3'- gUCGUACCGUcuuuucacaACGUCCG- -5'
21887 3' -49.8 NC_004902.1 + 22047 0.67 0.858016
Target:  5'- -uGCGUGGaaacgggacaGGGAGAGcUGgUGCAGGUa -3'
miRNA:   3'- guCGUACCg---------UCUUUUC-ACaACGUCCG- -5'
21887 3' -49.8 NC_004902.1 + 33467 0.68 0.810268
Target:  5'- cCAGC-UGGCcGAGuaccUGUUGCAGGg -3'
miRNA:   3'- -GUCGuACCGuCUUuuc-ACAACGUCCg -5'
21887 3' -49.8 NC_004902.1 + 16948 0.68 0.810268
Target:  5'- -uGCAagGGCAGAu--GUGUUGUggccgaagggucAGGCg -3'
miRNA:   3'- guCGUa-CCGUCUuuuCACAACG------------UCCG- -5'
21887 3' -49.8 NC_004902.1 + 27989 0.68 0.789574
Target:  5'- -uGCGUGGUGGAGGGGU--UGCcccGGCg -3'
miRNA:   3'- guCGUACCGUCUUUUCAcaACGu--CCG- -5'
21887 3' -49.8 NC_004902.1 + 17969 0.68 0.778936
Target:  5'- gCAGCuugguUGGCGGAG------UGCAGGCg -3'
miRNA:   3'- -GUCGu----ACCGUCUUuucacaACGUCCG- -5'
21887 3' -49.8 NC_004902.1 + 25514 0.69 0.757147
Target:  5'- gGGC-UGcGCAGAuucGAGUGUaucUGcCAGGCg -3'
miRNA:   3'- gUCGuAC-CGUCUu--UUCACA---AC-GUCCG- -5'
21887 3' -49.8 NC_004902.1 + 658 0.7 0.676985
Target:  5'- aAGgAUGGCGGAGcAGuUGUUGggaAGGCa -3'
miRNA:   3'- gUCgUACCGUCUUuUC-ACAACg--UCCG- -5'
21887 3' -49.8 NC_004902.1 + 4872 0.7 0.665227
Target:  5'- aUAGCccUGGCGGGGAcaUGUUuGCGGGCc -3'
miRNA:   3'- -GUCGu-ACCGUCUUUucACAA-CGUCCG- -5'
21887 3' -49.8 NC_004902.1 + 39625 0.74 0.456392
Target:  5'- aCGGCAagggccugccaaGGCAG-GGAGUGUUGCuGGCa -3'
miRNA:   3'- -GUCGUa-----------CCGUCuUUUCACAACGuCCG- -5'
21887 3' -49.8 NC_004902.1 + 36923 0.74 0.447912
Target:  5'- aGGCuuggAUGGCGGAAGAGU--UGCuGGCa -3'
miRNA:   3'- gUCG----UACCGUCUUUUCAcaACGuCCG- -5'
21887 3' -49.8 NC_004902.1 + 25966 1.11 0.001549
Target:  5'- uCAGCAUGGCAGAAAAGUGUUGCAGGCc -3'
miRNA:   3'- -GUCGUACCGUCUUUUCACAACGUCCG- -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.