miRNA display CGI


Results 1 - 20 of 36 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
12898 3' -56.8 NC_003387.1 + 6738 1.09 0.000705
Target:  5'- uCAAGUUCCUCGACCAGGCCACCCUCGg -3'
miRNA:   3'- -GUUCAAGGAGCUGGUCCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 40777 0.66 0.648391
Target:  5'- gAGGUgcgCCUCGACCAagaucCCGCgCUCGc -3'
miRNA:   3'- gUUCAa--GGAGCUGGUcc---GGUGgGAGC- -5'
12898 3' -56.8 NC_003387.1 + 45666 0.67 0.57007
Target:  5'- gAAGgugUCCggucagggcgagCGGCCGGGCCugCCgUUGa -3'
miRNA:   3'- gUUCa--AGGa-----------GCUGGUCCGGugGG-AGC- -5'
12898 3' -56.8 NC_003387.1 + 49809 0.67 0.55077
Target:  5'- aCGAGagCCUCGcCCGcGGCCugCCgCGc -3'
miRNA:   3'- -GUUCaaGGAGCuGGU-CCGGugGGaGC- -5'
12898 3' -56.8 NC_003387.1 + 19916 0.67 0.55077
Target:  5'- gCAAGaccUCaagaUCGACCAGGCUgGCaCCUCGa -3'
miRNA:   3'- -GUUCa--AGg---AGCUGGUCCGG-UG-GGAGC- -5'
12898 3' -56.8 NC_003387.1 + 40724 0.69 0.438605
Target:  5'- aCAAGUgcaaCCU-GACCAaGCgCGCCCUCGa -3'
miRNA:   3'- -GUUCAa---GGAgCUGGUcCG-GUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 44511 0.66 0.648391
Target:  5'- -cAGUugcgUCUguUCGuGCCGGGCCGCCCggCGc -3'
miRNA:   3'- guUCA----AGG--AGC-UGGUCCGGUGGGa-GC- -5'
12898 3' -56.8 NC_003387.1 + 31171 0.66 0.648391
Target:  5'- -cGGUUgCCUCGguGCCGGGCgGCaCgUCGa -3'
miRNA:   3'- guUCAA-GGAGC--UGGUCCGgUG-GgAGC- -5'
12898 3' -56.8 NC_003387.1 + 125 0.67 0.55077
Target:  5'- -----gCCUCGAUgcGGUCGCCCUCGc -3'
miRNA:   3'- guucaaGGAGCUGguCCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 39194 0.7 0.401126
Target:  5'- --cGUgcagCUCGACCAGGCC-CCCgCGg -3'
miRNA:   3'- guuCAag--GAGCUGGUCCGGuGGGaGC- -5'
12898 3' -56.8 NC_003387.1 + 30121 0.78 0.122697
Target:  5'- gCAAGggccugagCUUCGACCguggccgcaccgAGGCCACCCUCGa -3'
miRNA:   3'- -GUUCaa------GGAGCUGG------------UCCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 50848 0.74 0.230611
Target:  5'- uCGGGUUCCugcagcgcaagacgcUCGAUUGGGUCGCCCUUGa -3'
miRNA:   3'- -GUUCAAGG---------------AGCUGGUCCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 6345 0.67 0.572225
Target:  5'- gCAAGaagCUCGACCAGGCCgucAUuuUCGg -3'
miRNA:   3'- -GUUCaagGAGCUGGUCCGG---UGggAGC- -5'
12898 3' -56.8 NC_003387.1 + 39115 0.66 0.615647
Target:  5'- aCGAG-UCgUCGACC-GGCCGCCaccaCGg -3'
miRNA:   3'- -GUUCaAGgAGCUGGuCCGGUGGga--GC- -5'
12898 3' -56.8 NC_003387.1 + 9445 0.67 0.572225
Target:  5'- gGGGUcgCCUCGGCC--GCCACCggCUCGu -3'
miRNA:   3'- gUUCAa-GGAGCUGGucCGGUGG--GAGC- -5'
12898 3' -56.8 NC_003387.1 + 40596 0.69 0.419612
Target:  5'- gCAGGUcgcUgCUCGguGCCGGGCCACCggCGg -3'
miRNA:   3'- -GUUCA---AgGAGC--UGGUCCGGUGGgaGC- -5'
12898 3' -56.8 NC_003387.1 + 25441 0.69 0.429047
Target:  5'- -----cCCUCGACCucGCCGCUCUUGg -3'
miRNA:   3'- guucaaGGAGCUGGucCGGUGGGAGC- -5'
12898 3' -56.8 NC_003387.1 + 13248 0.69 0.448284
Target:  5'- -----gCgUCGGCCAGGUCGCgCUCGg -3'
miRNA:   3'- guucaaGgAGCUGGUCCGGUGgGAGC- -5'
12898 3' -56.8 NC_003387.1 + 12085 0.69 0.448284
Target:  5'- gCAuGcgCCgugUCGACCAGGCCGCgccacacguCCUCGa -3'
miRNA:   3'- -GUuCaaGG---AGCUGGUCCGGUG---------GGAGC- -5'
12898 3' -56.8 NC_003387.1 + 26230 0.67 0.572225
Target:  5'- gGGGUugacUCCUCGGggUCAGGCCGCgCgagCGg -3'
miRNA:   3'- gUUCA----AGGAGCU--GGUCCGGUGgGa--GC- -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.