miRNA display CGI


Results 1 - 20 of 23 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
9182 3' -55.4 NC_002512.2 + 207565 0.66 0.973059
Target:  5'- -cGUCCCUCGcGUCC-CucgcGCUCCc -3'
miRNA:   3'- ucCAGGGAGCcCAGGuGuaaaCGAGG- -5'
9182 3' -55.4 NC_002512.2 + 198513 0.66 0.973059
Target:  5'- cGGUCCgCUCGGGUCgC-CuucgauCUCCa -3'
miRNA:   3'- uCCAGG-GAGCCCAG-GuGuaaac-GAGG- -5'
9182 3' -55.4 NC_002512.2 + 184855 0.66 0.973059
Target:  5'- ---aUCCUCGGGUCCACcgUcagcgugcgcUGCUacugCCa -3'
miRNA:   3'- uccaGGGAGCCCAGGUGuaA----------ACGA----GG- -5'
9182 3' -55.4 NC_002512.2 + 176747 0.66 0.970325
Target:  5'- cAGGUCCUUCaGGGUCgcuucggacgccUGCAgg-GCUCg -3'
miRNA:   3'- -UCCAGGGAG-CCCAG------------GUGUaaaCGAGg -5'
9182 3' -55.4 NC_002512.2 + 113717 0.66 0.970325
Target:  5'- uGGGUCCCgacgCGGG-CgGCGaucUGCgggCCg -3'
miRNA:   3'- -UCCAGGGa---GCCCaGgUGUaa-ACGa--GG- -5'
9182 3' -55.4 NC_002512.2 + 218982 0.66 0.964272
Target:  5'- gAGGUCCggCccgGGGUCCGCAaccGcCUCCu -3'
miRNA:   3'- -UCCAGGgaG---CCCAGGUGUaaaC-GAGG- -5'
9182 3' -55.4 NC_002512.2 + 104748 0.66 0.960943
Target:  5'- gGGGcCCC-CGcGGUUCACGcgUGCUgCa -3'
miRNA:   3'- -UCCaGGGaGC-CCAGGUGUaaACGAgG- -5'
9182 3' -55.4 NC_002512.2 + 192962 0.66 0.957404
Target:  5'- -cGUCCCcCGGGUCCuccc--GCUCUg -3'
miRNA:   3'- ucCAGGGaGCCCAGGuguaaaCGAGG- -5'
9182 3' -55.4 NC_002512.2 + 153059 0.67 0.953653
Target:  5'- cGGUCCCcggUCGGGUCgGCGgucgagGCg-- -3'
miRNA:   3'- uCCAGGG---AGCCCAGgUGUaaa---CGagg -5'
9182 3' -55.4 NC_002512.2 + 76934 0.67 0.949685
Target:  5'- gAGGaCCCcgcUCGcGGaUCCACAgucGCUCCc -3'
miRNA:   3'- -UCCaGGG---AGC-CC-AGGUGUaaaCGAGG- -5'
9182 3' -55.4 NC_002512.2 + 60616 0.67 0.945497
Target:  5'- cAGGUCCCUC----CCACAcuugGCUCCc -3'
miRNA:   3'- -UCCAGGGAGcccaGGUGUaaa-CGAGG- -5'
9182 3' -55.4 NC_002512.2 + 60686 0.67 0.945497
Target:  5'- cAGGUCCCUC----CCACAcuugGCUCCc -3'
miRNA:   3'- -UCCAGGGAGcccaGGUGUaaa-CGAGG- -5'
9182 3' -55.4 NC_002512.2 + 87789 0.67 0.936452
Target:  5'- cGGGUCgguaC-CGGGUCCGCGUucggUUGCaCCc -3'
miRNA:   3'- -UCCAGg---GaGCCCAGGUGUA----AACGaGG- -5'
9182 3' -55.4 NC_002512.2 + 204807 0.69 0.897678
Target:  5'- gAGGUCCgCguccCGGGggCGCGgcgGCUCCg -3'
miRNA:   3'- -UCCAGG-Ga---GCCCagGUGUaaaCGAGG- -5'
9182 3' -55.4 NC_002512.2 + 169631 0.7 0.855927
Target:  5'- cAGGUCCaggugUCGGGUCUGCGgcaUGaUUCCg -3'
miRNA:   3'- -UCCAGGg----AGCCCAGGUGUaa-AC-GAGG- -5'
9182 3' -55.4 NC_002512.2 + 153009 0.7 0.83239
Target:  5'- cGGUCCCcggUCGGGUCgGCGggaGCggUCCc -3'
miRNA:   3'- uCCAGGG---AGCCCAGgUGUaaaCG--AGG- -5'
9182 3' -55.4 NC_002512.2 + 152959 0.7 0.83239
Target:  5'- cGGUCCCcggUCGGGUCgGCGggaGCggUCCc -3'
miRNA:   3'- uCCAGGG---AGCCCAGgUGUaaaCG--AGG- -5'
9182 3' -55.4 NC_002512.2 + 218120 0.7 0.824189
Target:  5'- gGGGUCgCUCGGGUagaaCACGUcgucgucgucgUcGCUCCc -3'
miRNA:   3'- -UCCAGgGAGCCCAg---GUGUA-----------AaCGAGG- -5'
9182 3' -55.4 NC_002512.2 + 88482 0.71 0.798623
Target:  5'- cAGGaUCUUCGGGuggaUCCGCAgccGCUCCg -3'
miRNA:   3'- -UCCaGGGAGCCC----AGGUGUaaaCGAGG- -5'
9182 3' -55.4 NC_002512.2 + 218297 0.71 0.780851
Target:  5'- gGGGUCCCcggcccUGGGcggCCGCucgUGCUCCc -3'
miRNA:   3'- -UCCAGGGa-----GCCCa--GGUGuaaACGAGG- -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.