miRNA display CGI


Results 1 - 20 of 60 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
14630 3' -59.6 NC_003521.1 + 178983 0.73 0.448608
Target:  5'- gCCGCGGUUCCGcGGCGcccUCCCAGGg -3'
miRNA:   3'- aGGUGCCGGGGCuUCGCu--AGGGUCUu -5'
14630 3' -59.6 NC_003521.1 + 110994 0.66 0.837339
Target:  5'- gCCACGGgCCCCagcagcAGGCGG-CCCAGc- -3'
miRNA:   3'- aGGUGCC-GGGGc-----UUCGCUaGGGUCuu -5'
14630 3' -59.6 NC_003521.1 + 3057 0.66 0.837339
Target:  5'- aCCGC--CCCCGAAuucucCGAUCCCGGGAa -3'
miRNA:   3'- aGGUGccGGGGCUUc----GCUAGGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 199998 0.66 0.860081
Target:  5'- gUCCAUGgcgcgggccccGCCCCGAGGCGAauagcugaccgCgCCGGGAg -3'
miRNA:   3'- -AGGUGC-----------CGGGGCUUCGCUa----------G-GGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 29939 0.69 0.656222
Target:  5'- -gCACGGCCaCCGAGGCGAcguacaCCCuGGg -3'
miRNA:   3'- agGUGCCGG-GGCUUCGCUa-----GGGuCUu -5'
14630 3' -59.6 NC_003521.1 + 166678 0.69 0.656222
Target:  5'- aCCugGGCCCCGuGGCGcgCCa---- -3'
miRNA:   3'- aGGugCCGGGGCuUCGCuaGGgucuu -5'
14630 3' -59.6 NC_003521.1 + 175120 0.69 0.685353
Target:  5'- gCCGCGGCgCCGcuGUccuucuugccuGGUCCCGGAAg -3'
miRNA:   3'- aGGUGCCGgGGCuuCG-----------CUAGGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 84042 0.68 0.723596
Target:  5'- gUCCACGGCCaCCuucucGAGCGAgaggCCCuGGc -3'
miRNA:   3'- -AGGUGCCGG-GGc----UUCGCUa---GGGuCUu -5'
14630 3' -59.6 NC_003521.1 + 161141 0.68 0.74232
Target:  5'- -aCGCGGCCgCG-GGCGGUCgCGGAc -3'
miRNA:   3'- agGUGCCGGgGCuUCGCUAGgGUCUu -5'
14630 3' -59.6 NC_003521.1 + 196933 0.66 0.836554
Target:  5'- gUCCAcCGGCagcaCCGGuagcgugGGCGAcggCCCGGGAg -3'
miRNA:   3'- -AGGU-GCCGg---GGCU-------UCGCUa--GGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 106760 0.67 0.813069
Target:  5'- gUCCAgGGCgCCC-AGGCGGUCgaaaCCAGGc -3'
miRNA:   3'- -AGGUgCCG-GGGcUUCGCUAG----GGUCUu -5'
14630 3' -59.6 NC_003521.1 + 4535 0.68 0.74232
Target:  5'- aCCGCaucGCCCCGAGGCGuugcUCUgAGGAu -3'
miRNA:   3'- aGGUGc--CGGGGCUUCGCu---AGGgUCUU- -5'
14630 3' -59.6 NC_003521.1 + 178719 0.71 0.57827
Target:  5'- cCCGCgcgGGCgCCGAAGCGuUCCCGGu- -3'
miRNA:   3'- aGGUG---CCGgGGCUUCGCuAGGGUCuu -5'
14630 3' -59.6 NC_003521.1 + 144866 0.67 0.813069
Target:  5'- cCCGCGGguCCCCGAAcCGcAUCCguGAGg -3'
miRNA:   3'- aGGUGCC--GGGGCUUcGC-UAGGguCUU- -5'
14630 3' -59.6 NC_003521.1 + 120552 0.7 0.617165
Target:  5'- cCgGCGGUCCCGggG-GAgcgCCCGGGGa -3'
miRNA:   3'- aGgUGCCGGGGCuuCgCUa--GGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 209272 0.68 0.723596
Target:  5'- aCCugGGCUUCGccGAGUGGUCgCAGAc -3'
miRNA:   3'- aGGugCCGGGGC--UUCGCUAGgGUCUu -5'
14630 3' -59.6 NC_003521.1 + 179044 0.66 0.821318
Target:  5'- aUCCAC-GCCggagCCGGcGGCGGUCCCGGu- -3'
miRNA:   3'- -AGGUGcCGG----GGCU-UCGCUAGGGUCuu -5'
14630 3' -59.6 NC_003521.1 + 187238 0.66 0.837339
Target:  5'- gCCAagUGaGCUUCGAGGCGGcCCCGGGAg -3'
miRNA:   3'- aGGU--GC-CGGGGCUUCGCUaGGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 42815 0.7 0.626931
Target:  5'- gCCACGGuCCCCGAacgcaacuguGGCGuaugcuacCCCGGGAa -3'
miRNA:   3'- aGGUGCC-GGGGCU----------UCGCua------GGGUCUU- -5'
14630 3' -59.6 NC_003521.1 + 40321 0.69 0.675673
Target:  5'- cUCCGaucCGGCCuCCGcuGCgGGUCCCGGGGg -3'
miRNA:   3'- -AGGU---GCCGG-GGCuuCG-CUAGGGUCUU- -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.