miRNA display CGI


Results 1 - 20 of 127 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
28880 3' -50.7 NC_006146.1 + 2101 0.71 0.910842
Target:  5'- -aGCGAGcaaggagaacgccucGGCACGgAGAGCGCCc -3'
miRNA:   3'- agCGCUUuaaa-----------CCGUGUgUCUCGCGG- -5'
28880 3' -50.7 NC_006146.1 + 3793 0.67 0.991967
Target:  5'- -gGgGggGgggGGCACGCGGGGgaugGCCa -3'
miRNA:   3'- agCgCuuUaaaCCGUGUGUCUCg---CGG- -5'
28880 3' -50.7 NC_006146.1 + 9693 0.7 0.948341
Target:  5'- -aGCuuuGAAG--UGGgGCACGGGGUGCCa -3'
miRNA:   3'- agCG---CUUUaaACCgUGUGUCUCGCGG- -5'
28880 3' -50.7 NC_006146.1 + 10284 0.67 0.988045
Target:  5'- aCGCGGAGc-UGGCAUGCcaGGCgGCCg -3'
miRNA:   3'- aGCGCUUUaaACCGUGUGucUCG-CGG- -5'
28880 3' -50.7 NC_006146.1 + 10520 0.68 0.9847
Target:  5'- uUUGCGAGAcugGGCggccugccaaggGCGCuGAGaCGCCa -3'
miRNA:   3'- -AGCGCUUUaaaCCG------------UGUGuCUC-GCGG- -5'
28880 3' -50.7 NC_006146.1 + 11562 0.68 0.9847
Target:  5'- aUGCuGGAGgc-GGCGCAC-GAGaCGCCg -3'
miRNA:   3'- aGCG-CUUUaaaCCGUGUGuCUC-GCGG- -5'
28880 3' -50.7 NC_006146.1 + 14043 0.68 0.980686
Target:  5'- -gGCGggGgcaGGCGCA---AGCGCCg -3'
miRNA:   3'- agCGCuuUaaaCCGUGUgucUCGCGG- -5'
28880 3' -50.7 NC_006146.1 + 14206 0.66 0.994791
Target:  5'- aCGgGGAGgcggUGGCGCGCAacgcGGGCcuucugGCCg -3'
miRNA:   3'- aGCgCUUUaa--ACCGUGUGU----CUCG------CGG- -5'
28880 3' -50.7 NC_006146.1 + 14801 0.68 0.982781
Target:  5'- -aGCaacuAUUucUGGCAgCAuCAGAGCGCCa -3'
miRNA:   3'- agCGcuu-UAA--ACCGU-GU-GUCUCGCGG- -5'
28880 3' -50.7 NC_006146.1 + 17879 0.68 0.982781
Target:  5'- -aGCaacuAUUucUGGCAgCAuCAGAGCGCCa -3'
miRNA:   3'- agCGcuu-UAA--ACCGU-GU-GUCUCGCGG- -5'
28880 3' -50.7 NC_006146.1 + 19169 0.68 0.983569
Target:  5'- gCGUGAAcgUguuugGGCagcaggccuacuucuACGCAGGcGCGCCu -3'
miRNA:   3'- aGCGCUUuaAa----CCG---------------UGUGUCU-CGCGG- -5'
28880 3' -50.7 NC_006146.1 + 20952 0.67 0.989489
Target:  5'- -gGCccaGAAcuAUUucUGGCAgCAuCAGAGCGCCa -3'
miRNA:   3'- agCG---CUU--UAA--ACCGU-GU-GUCUCGCGG- -5'
28880 3' -50.7 NC_006146.1 + 23329 0.66 0.99553
Target:  5'- gCGCGAGua-UGGCccuGCAGAccgaccucaGCGCCu -3'
miRNA:   3'- aGCGCUUuaaACCGug-UGUCU---------CGCGG- -5'
28880 3' -50.7 NC_006146.1 + 23727 0.73 0.837973
Target:  5'- -gGCGAAGg--GGCGC-CGGucuGCGCCg -3'
miRNA:   3'- agCGCUUUaaaCCGUGuGUCu--CGCGG- -5'
28880 3' -50.7 NC_006146.1 + 24034 0.68 0.982781
Target:  5'- -aGCaacuAUUucUGGCAgCAuCAGAGCGCCa -3'
miRNA:   3'- agCGcuu-UAA--ACCGU-GU-GUCUCGCGG- -5'
28880 3' -50.7 NC_006146.1 + 24211 0.69 0.967282
Target:  5'- cUGCGAGGUucugUUGGgGC-CGGGGcCGCCc -3'
miRNA:   3'- aGCGCUUUA----AACCgUGuGUCUC-GCGG- -5'
28880 3' -50.7 NC_006146.1 + 27112 0.68 0.982781
Target:  5'- -aGCaacuAUUucUGGCAgCAuCAGAGCGCCa -3'
miRNA:   3'- agCGcuu-UAA--ACCGU-GU-GUCUCGCGG- -5'
28880 3' -50.7 NC_006146.1 + 27878 0.73 0.849611
Target:  5'- cUGCGAAAaUUGGCACGCaagcggaggggaccgGGAGCuGCUc -3'
miRNA:   3'- aGCGCUUUaAACCGUGUG---------------UCUCG-CGG- -5'
28880 3' -50.7 NC_006146.1 + 30109 1.12 0.006393
Target:  5'- cUCGCGAAAUUUGGCACACAGAGCGCCc -3'
miRNA:   3'- -AGCGCUUUAAACCGUGUGUCUCGCGG- -5'
28880 3' -50.7 NC_006146.1 + 32877 0.68 0.978407
Target:  5'- gCGCGAGGUcccugccUGGCaccaggguccgGCugGGGGCGCa -3'
miRNA:   3'- aGCGCUUUAa------ACCG-----------UGugUCUCGCGg -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.