miRNA display CGI


Results 1 - 20 of 26 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
30791 3' -64.8 NC_006552.1 + 16435 1.09 0.000177
Target:  5'- cUCGCCCAGUCCCGCCCCAGCGCCAGGu -3'
miRNA:   3'- -AGCGGGUCAGGGCGGGGUCGCGGUCC- -5'
30791 3' -64.8 NC_006552.1 + 7361 0.74 0.090856
Target:  5'- cCGcCCCAGUUCCGCCgCAGCGCg--- -3'
miRNA:   3'- aGC-GGGUCAGGGCGGgGUCGCGgucc -5'
30791 3' -64.8 NC_006552.1 + 48226 0.73 0.103089
Target:  5'- -gGCCCugcuaagcaaCCCGCCCCGGUucGCCGGGa -3'
miRNA:   3'- agCGGGuca-------GGGCGGGGUCG--CGGUCC- -5'
30791 3' -64.8 NC_006552.1 + 7190 0.72 0.115049
Target:  5'- aUCaCCCAagcgcGUCCCGuCCCCGGCGCgCAGc -3'
miRNA:   3'- -AGcGGGU-----CAGGGC-GGGGUCGCG-GUCc -5'
30791 3' -64.8 NC_006552.1 + 51167 0.72 0.115049
Target:  5'- gUCGCCgAGaaggCCCGCgCCaaAGCGCCAGu -3'
miRNA:   3'- -AGCGGgUCa---GGGCGgGG--UCGCGGUCc -5'
30791 3' -64.8 NC_006552.1 + 30563 0.72 0.115049
Target:  5'- -gGCCCcG-CCgGUCCaCAGCGCCGGGa -3'
miRNA:   3'- agCGGGuCaGGgCGGG-GUCGCGGUCC- -5'
30791 3' -64.8 NC_006552.1 + 22998 0.72 0.125667
Target:  5'- gUCGcCCCGGuUCCCGUuccgcgucugccccaUCCAGUGCCAGa -3'
miRNA:   3'- -AGC-GGGUC-AGGGCG---------------GGGUCGCGGUCc -5'
30791 3' -64.8 NC_006552.1 + 25400 0.7 0.155106
Target:  5'- -gGUCCAGUUagcagcaggugcugCCGUCCCAGCgaacaggGCCAGGa -3'
miRNA:   3'- agCGGGUCAG--------------GGCGGGGUCG-------CGGUCC- -5'
30791 3' -64.8 NC_006552.1 + 44068 0.7 0.164839
Target:  5'- cCGCCCGGcgcgcuuccucuUCgCCGCCgcgcucuuggCCGGCGCCuGGg -3'
miRNA:   3'- aGCGGGUC------------AG-GGCGG----------GGUCGCGGuCC- -5'
30791 3' -64.8 NC_006552.1 + 16068 0.69 0.206368
Target:  5'- -aGCCgGGUCCaGCCCCaucugcucggAGCGCUuuGGGg -3'
miRNA:   3'- agCGGgUCAGGgCGGGG----------UCGCGG--UCC- -5'
30791 3' -64.8 NC_006552.1 + 32973 0.69 0.206368
Target:  5'- gCGUCgGcGUCCUgGCuCCCAGCGuCCGGGa -3'
miRNA:   3'- aGCGGgU-CAGGG-CG-GGGUCGC-GGUCC- -5'
30791 3' -64.8 NC_006552.1 + 20193 0.69 0.206368
Target:  5'- gCGCugCUGGUugaUCUGCCCCAGCGCCAc- -3'
miRNA:   3'- aGCG--GGUCA---GGGCGGGGUCGCGGUcc -5'
30791 3' -64.8 NC_006552.1 + 18551 0.69 0.211504
Target:  5'- gUCGCCC-GUCCCGCggagaaCCgAGUcgguucgccaGCCAGGc -3'
miRNA:   3'- -AGCGGGuCAGGGCG------GGgUCG----------CGGUCC- -5'
30791 3' -64.8 NC_006552.1 + 26506 0.68 0.222106
Target:  5'- aCGaUCCGGcgCCUGCCaCCagcagcggcGGCGCCGGGg -3'
miRNA:   3'- aGC-GGGUCa-GGGCGG-GG---------UCGCGGUCC- -5'
30791 3' -64.8 NC_006552.1 + 34134 0.68 0.233158
Target:  5'- gUGCUCGGaUgCCGCCCaggcuuGCGCCAGa -3'
miRNA:   3'- aGCGGGUC-AgGGCGGGgu----CGCGGUCc -5'
30791 3' -64.8 NC_006552.1 + 53079 0.68 0.238855
Target:  5'- gUUGCCCAGUgaagaCCCGUgCCAGCcCCAc- -3'
miRNA:   3'- -AGCGGGUCA-----GGGCGgGGUCGcGGUcc -5'
30791 3' -64.8 NC_006552.1 + 48965 0.68 0.244081
Target:  5'- cCGCCCAcauucgcaugaacGUucCCCGCCUCccCGCCGGGc -3'
miRNA:   3'- aGCGGGU-------------CA--GGGCGGGGucGCGGUCC- -5'
30791 3' -64.8 NC_006552.1 + 52944 0.67 0.275508
Target:  5'- cUGCgCCGGcgCCCGCCgCCGGUGCggcaucCGGGu -3'
miRNA:   3'- aGCG-GGUCa-GGGCGG-GGUCGCG------GUCC- -5'
30791 3' -64.8 NC_006552.1 + 28212 0.67 0.282037
Target:  5'- uUCGCCCcgaaGGUCgCGaCCuCCGGCGUCAc- -3'
miRNA:   3'- -AGCGGG----UCAGgGC-GG-GGUCGCGGUcc -5'
30791 3' -64.8 NC_006552.1 + 25995 0.66 0.295462
Target:  5'- aCGCUCAGgCuuGCCggaUCAGCGCCAu- -3'
miRNA:   3'- aGCGGGUCaGggCGG---GGUCGCGGUcc -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.