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
23823 5' -62.6 NC_005261.1 + 24390 0.77 0.142166
Target:  5'- gCUCGUcgGCGGcGGGGCGGUCCuGgGGGCu -3'
miRNA:   3'- -GAGCA--CGCC-CCCCGCUAGG-CgCUCGu -5'
23823 5' -62.6 NC_005261.1 + 134364 0.75 0.181515
Target:  5'- -cCGcGCGGGGGGCGGcgCCGCuGGCGa -3'
miRNA:   3'- gaGCaCGCCCCCCGCUa-GGCGcUCGU- -5'
23823 5' -62.6 NC_005261.1 + 90225 0.74 0.199795
Target:  5'- cCUCGcgcgGCGGGcGGGCGcgCCGuCGGGUAu -3'
miRNA:   3'- -GAGCa---CGCCC-CCCGCuaGGC-GCUCGU- -5'
23823 5' -62.6 NC_005261.1 + 12774 0.74 0.209523
Target:  5'- -gCGgugGCGGGGGGCucGUCgGCGAGCu -3'
miRNA:   3'- gaGCa--CGCCCCCCGc-UAGgCGCUCGu -5'
23823 5' -62.6 NC_005261.1 + 64529 0.73 0.252587
Target:  5'- cCUCGU-CGGGGGGCaGGUCCGgGAcCAc -3'
miRNA:   3'- -GAGCAcGCCCCCCG-CUAGGCgCUcGU- -5'
23823 5' -62.6 NC_005261.1 + 73592 0.72 0.296017
Target:  5'- -gCG-GCGGaGGcGGCGG-CCGCGAGCGc -3'
miRNA:   3'- gaGCaCGCC-CC-CCGCUaGGCGCUCGU- -5'
23823 5' -62.6 NC_005261.1 + 13695 0.71 0.309447
Target:  5'- -gCGUGgGGcGGGGCGggCUGgGGGCGg -3'
miRNA:   3'- gaGCACgCC-CCCCGCuaGGCgCUCGU- -5'
23823 5' -62.6 NC_005261.1 + 103865 0.71 0.316335
Target:  5'- -gCGgcgGCGGcGGGGCGGcgCCGcCGGGCGg -3'
miRNA:   3'- gaGCa--CGCC-CCCCGCUa-GGC-GCUCGU- -5'
23823 5' -62.6 NC_005261.1 + 15496 0.71 0.330455
Target:  5'- gCUCGcUGCGGgcGGGGCGuguGUCgGCGuGCAg -3'
miRNA:   3'- -GAGC-ACGCC--CCCCGC---UAGgCGCuCGU- -5'
23823 5' -62.6 NC_005261.1 + 1003 0.71 0.330455
Target:  5'- -aCGgggGCGGGGGGCGGgggGCGGGUg -3'
miRNA:   3'- gaGCa--CGCCCCCCGCUaggCGCUCGu -5'
23823 5' -62.6 NC_005261.1 + 25275 0.7 0.391486
Target:  5'- uUCGccGCGaGGGGGCGcggucuguggCCGUGAGCGu -3'
miRNA:   3'- gAGCa-CGC-CCCCCGCua--------GGCGCUCGU- -5'
23823 5' -62.6 NC_005261.1 + 68280 0.7 0.391486
Target:  5'- -cCGcGCGGcGGGGCcccggCCGCGGGCGc -3'
miRNA:   3'- gaGCaCGCC-CCCCGcua--GGCGCUCGU- -5'
23823 5' -62.6 NC_005261.1 + 97056 0.69 0.399614
Target:  5'- ----gGCGGGGGGCGGcgggcacgaUCCGCGucggaGGCGc -3'
miRNA:   3'- gagcaCGCCCCCCGCU---------AGGCGC-----UCGU- -5'
23823 5' -62.6 NC_005261.1 + 32508 0.69 0.416191
Target:  5'- aUCG-GCGGGGGGUccGcgCCGCGcccGGCc -3'
miRNA:   3'- gAGCaCGCCCCCCG--CuaGGCGC---UCGu -5'
23823 5' -62.6 NC_005261.1 + 20281 0.69 0.424635
Target:  5'- gUCGUGuCGcGGGGGCGcgCUuGCG-GCAg -3'
miRNA:   3'- gAGCAC-GC-CCCCCGCuaGG-CGCuCGU- -5'
23823 5' -62.6 NC_005261.1 + 100405 0.69 0.424635
Target:  5'- gUUGUccaGCGGGGGGCGcAUCgaggcgcccgccUGCGAGUAc -3'
miRNA:   3'- gAGCA---CGCCCCCCGC-UAG------------GCGCUCGU- -5'
23823 5' -62.6 NC_005261.1 + 98050 0.69 0.433181
Target:  5'- -gCGgccGCGGGcGGCGGgaCCGCGGGCGg -3'
miRNA:   3'- gaGCa--CGCCCcCCGCUa-GGCGCUCGU- -5'
23823 5' -62.6 NC_005261.1 + 127743 0.69 0.450569
Target:  5'- gCUUG-GCGGcGGGaGCGggCCGCG-GCGg -3'
miRNA:   3'- -GAGCaCGCC-CCC-CGCuaGGCGCuCGU- -5'
23823 5' -62.6 NC_005261.1 + 49120 0.68 0.468333
Target:  5'- cCUCGaGCGcGGcGGGCGGgacccCCGCGcGCAg -3'
miRNA:   3'- -GAGCaCGC-CC-CCCGCUa----GGCGCuCGU- -5'
23823 5' -62.6 NC_005261.1 + 128069 0.68 0.468333
Target:  5'- -aUG-GCGGGcGGGCGggCgaGCGAGCGg -3'
miRNA:   3'- gaGCaCGCCC-CCCGCuaGg-CGCUCGU- -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.