miRNA display CGI


Results 1 - 18 of 18 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
7258 3' -54.6 NC_001900.1 + 41790 0.66 0.719281
Target:  5'- aCGUGgCCucaGAGAaCCUGAGCaAGGcCGCu -3'
miRNA:   3'- -GUACaGG---UUCUaGGACUCGgUCC-GCG- -5'
7258 3' -54.6 NC_001900.1 + 23307 0.66 0.708346
Target:  5'- --cGUCCAGGcgagCCUGcAGCUcGGCGa -3'
miRNA:   3'- guaCAGGUUCua--GGAC-UCGGuCCGCg -5'
7258 3' -54.6 NC_001900.1 + 9887 0.66 0.686256
Target:  5'- gGUG-CCGuacAGGUCCgaGAGCCGGGUcCg -3'
miRNA:   3'- gUACaGGU---UCUAGGa-CUCGGUCCGcG- -5'
7258 3' -54.6 NC_001900.1 + 22226 0.67 0.66395
Target:  5'- aAUGUCUggGAuacgcacgggUUCUGGGUCGGGaGCu -3'
miRNA:   3'- gUACAGGuuCU----------AGGACUCGGUCCgCG- -5'
7258 3' -54.6 NC_001900.1 + 39283 0.67 0.630285
Target:  5'- gAUGUgcaaCAAGuacAUCCUcGGCUGGGCGCg -3'
miRNA:   3'- gUACAg---GUUC---UAGGAcUCGGUCCGCG- -5'
7258 3' -54.6 NC_001900.1 + 22755 0.67 0.619053
Target:  5'- gAUGaUCCcGGA--CUGGGCCgaAGGCGCg -3'
miRNA:   3'- gUAC-AGGuUCUagGACUCGG--UCCGCG- -5'
7258 3' -54.6 NC_001900.1 + 24628 0.67 0.606711
Target:  5'- gCGUGgggCCAAGGcggcuucggcgguUCCUGGGUgacggccacgcuCAGGCGUg -3'
miRNA:   3'- -GUACa--GGUUCU-------------AGGACUCG------------GUCCGCG- -5'
7258 3' -54.6 NC_001900.1 + 35388 0.68 0.595515
Target:  5'- --aGUUCAAGAUCCUGcccGCUggucgacaucuguGGGCGUc -3'
miRNA:   3'- guaCAGGUUCUAGGACu--CGG-------------UCCGCG- -5'
7258 3' -54.6 NC_001900.1 + 46853 0.68 0.585466
Target:  5'- --cG-CCAAGGgaucggCCUGcGCUAGGUGCg -3'
miRNA:   3'- guaCaGGUUCUa-----GGACuCGGUCCGCG- -5'
7258 3' -54.6 NC_001900.1 + 146 0.69 0.519611
Target:  5'- gGUGgCuCAcAGcgCCUGGGCgAGGCGCu -3'
miRNA:   3'- gUACaG-GU-UCuaGGACUCGgUCCGCG- -5'
7258 3' -54.6 NC_001900.1 + 12142 0.7 0.477355
Target:  5'- cCAUGUUCAAGGgcuaCCUgGAGCCcgagcAGGCGa -3'
miRNA:   3'- -GUACAGGUUCUa---GGA-CUCGG-----UCCGCg -5'
7258 3' -54.6 NC_001900.1 + 1632 0.7 0.477354
Target:  5'- --aGUCCAGGAgCUUGu-CCAGGUGCu -3'
miRNA:   3'- guaCAGGUUCUaGGACucGGUCCGCG- -5'
7258 3' -54.6 NC_001900.1 + 10364 0.71 0.421231
Target:  5'- gCAUGUCCGGGGgaacgucgccacCCUucaucagccgguaGGCCAGGCGCa -3'
miRNA:   3'- -GUACAGGUUCUa-----------GGAc------------UCGGUCCGCG- -5'
7258 3' -54.6 NC_001900.1 + 4503 0.71 0.407831
Target:  5'- ----aCCu-GGUCCaGAGCCAGGCGUc -3'
miRNA:   3'- guacaGGuuCUAGGaCUCGGUCCGCG- -5'
7258 3' -54.6 NC_001900.1 + 13302 0.76 0.194348
Target:  5'- uGUGggCCAAGGagCCUGAGCCAgaagucauGGCGCu -3'
miRNA:   3'- gUACa-GGUUCUa-GGACUCGGU--------CCGCG- -5'
7258 3' -54.6 NC_001900.1 + 30763 0.81 0.098625
Target:  5'- gCGUGUCCAGGAUCUUaGGCCAGaGCGa -3'
miRNA:   3'- -GUACAGGUUCUAGGAcUCGGUC-CGCg -5'
7258 3' -54.6 NC_001900.1 + 34890 0.86 0.044502
Target:  5'- gGUcUCCGAGAUCCUGAGCCGGuGUGCc -3'
miRNA:   3'- gUAcAGGUUCUAGGACUCGGUC-CGCG- -5'
7258 3' -54.6 NC_001900.1 + 1516 1.12 0.000527
Target:  5'- cCAUGUCCAAGAUCCUGAGCCAGGCGCa -3'
miRNA:   3'- -GUACAGGUUCUAGGACUCGGUCCGCG- -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.