miRNA display CGI


Results 1 - 20 of 25 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
7283 5' -59.2 NC_001900.1 + 8476 1.14 0.000169
Target:  5'- cGCGGCCGAGGACUCCUGGCUGUCACCg -3'
miRNA:   3'- -CGCCGGCUCCUGAGGACCGACAGUGG- -5'
7283 5' -59.2 NC_001900.1 + 13679 0.77 0.102306
Target:  5'- --cGCCGGGGuuuCUCCUGGCgGUCACa -3'
miRNA:   3'- cgcCGGCUCCu--GAGGACCGaCAGUGg -5'
7283 5' -59.2 NC_001900.1 + 44767 0.74 0.149951
Target:  5'- aGCGGCCuggcugccgcaGGGGACcgcguUCCacGCUGUCGCCg -3'
miRNA:   3'- -CGCCGG-----------CUCCUG-----AGGacCGACAGUGG- -5'
7283 5' -59.2 NC_001900.1 + 41104 0.74 0.162507
Target:  5'- cGCGGCCGuGGAC-CUUGGuCUcGaUCACCc -3'
miRNA:   3'- -CGCCGGCuCCUGaGGACC-GA-C-AGUGG- -5'
7283 5' -59.2 NC_001900.1 + 20877 0.72 0.216947
Target:  5'- cGUGGUcugggacauCGAGGACaacUCUGGCUGgggCACCg -3'
miRNA:   3'- -CGCCG---------GCUCCUGa--GGACCGACa--GUGG- -5'
7283 5' -59.2 NC_001900.1 + 44513 0.71 0.233101
Target:  5'- cGUGGCgGGGGACUCCcGGCcaggagaucuggGUgACCc -3'
miRNA:   3'- -CGCCGgCUCCUGAGGaCCGa-----------CAgUGG- -5'
7283 5' -59.2 NC_001900.1 + 19256 0.71 0.246494
Target:  5'- cGCGaaGCa-GGGACcacggUCCUGGCUGUCGCg -3'
miRNA:   3'- -CGC--CGgcUCCUG-----AGGACCGACAGUGg -5'
7283 5' -59.2 NC_001900.1 + 35079 0.7 0.27247
Target:  5'- cGUGaUCGAGGACUCCcgcgagGGCUGggcaGCCg -3'
miRNA:   3'- -CGCcGGCUCCUGAGGa-----CCGACag--UGG- -5'
7283 5' -59.2 NC_001900.1 + 20364 0.7 0.300599
Target:  5'- gGUGGUCaagGAGGACUCCggGGaCUGcUACCu -3'
miRNA:   3'- -CGCCGG---CUCCUGAGGa-CC-GACaGUGG- -5'
7283 5' -59.2 NC_001900.1 + 7181 0.69 0.315484
Target:  5'- gGUGGCCG-GGACUCCgUGGUa---GCCc -3'
miRNA:   3'- -CGCCGGCuCCUGAGG-ACCGacagUGG- -5'
7283 5' -59.2 NC_001900.1 + 45189 0.69 0.323133
Target:  5'- -aGGCUuggaugGAGGACgaUCCUucccaGGUUGUCACCc -3'
miRNA:   3'- cgCCGG------CUCCUG--AGGA-----CCGACAGUGG- -5'
7283 5' -59.2 NC_001900.1 + 37674 0.69 0.330919
Target:  5'- uCGGCCaAGGugUCCcacUGGCgagGuUCGCCc -3'
miRNA:   3'- cGCCGGcUCCugAGG---ACCGa--C-AGUGG- -5'
7283 5' -59.2 NC_001900.1 + 35230 0.69 0.338842
Target:  5'- aGUGGuCCGAGGGCUUCUcGGUc--CACCc -3'
miRNA:   3'- -CGCC-GGCUCCUGAGGA-CCGacaGUGG- -5'
7283 5' -59.2 NC_001900.1 + 3594 0.68 0.363431
Target:  5'- cCGcGUCGAuGGCgUCCUGGaUGUCACCg -3'
miRNA:   3'- cGC-CGGCUcCUG-AGGACCgACAGUGG- -5'
7283 5' -59.2 NC_001900.1 + 18440 0.68 0.371898
Target:  5'- aCGGCCGAGGGCUUCggcaacGGCUucgaggaaggGUUccaGCCc -3'
miRNA:   3'- cGCCGGCUCCUGAGGa-----CCGA----------CAG---UGG- -5'
7283 5' -59.2 NC_001900.1 + 6396 0.67 0.407082
Target:  5'- aGCGGCCGuGGcCggugcGGCUG-CGCCg -3'
miRNA:   3'- -CGCCGGCuCCuGagga-CCGACaGUGG- -5'
7283 5' -59.2 NC_001900.1 + 41475 0.67 0.434801
Target:  5'- gGgGGuuGGGGGCgcagGGC-GUCACCg -3'
miRNA:   3'- -CgCCggCUCCUGaggaCCGaCAGUGG- -5'
7283 5' -59.2 NC_001900.1 + 40882 0.67 0.444281
Target:  5'- aCGGUguGGGACgcCCUGGCUGacgagcugCACCg -3'
miRNA:   3'- cGCCGgcUCCUGa-GGACCGACa-------GUGG- -5'
7283 5' -59.2 NC_001900.1 + 29447 0.67 0.444281
Target:  5'- aUGGCCGAGGAgaugggUCCgGuGCUGaucggCACCg -3'
miRNA:   3'- cGCCGGCUCCUg-----AGGaC-CGACa----GUGG- -5'
7283 5' -59.2 NC_001900.1 + 2455 0.67 0.444281
Target:  5'- aCGGCCccGGcuGCgUCCgGGCUGcCACCg -3'
miRNA:   3'- cGCCGGcuCC--UG-AGGaCCGACaGUGG- -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.