miRNA display CGI


Results 1 - 20 of 22 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
11297 3' -46.3 NC_003083.1 + 68721 0.66 0.999779
Target:  5'- aAACaguGUUUGCGCacauguuaaauaccaGCGUUGAgaacgCGACa -3'
miRNA:   3'- aUUGgu-UAAACGCG---------------CGCAACUa----GUUG- -5'
11297 3' -46.3 NC_003083.1 + 18336 0.66 0.999755
Target:  5'- -uGCCGAUaaggaagGCGUGCccGUgGAUCAACa -3'
miRNA:   3'- auUGGUUAaa-----CGCGCG--CAaCUAGUUG- -5'
11297 3' -46.3 NC_003083.1 + 27836 0.66 0.999598
Target:  5'- cGGCCAGcgUGCGUG-GUUGGgaagaugCAGCg -3'
miRNA:   3'- aUUGGUUaaACGCGCgCAACUa------GUUG- -5'
11297 3' -46.3 NC_003083.1 + 30383 0.66 0.99949
Target:  5'- aUGGCCA--UUGUGCGCGgcGGUgucgugcugugcCAACg -3'
miRNA:   3'- -AUUGGUuaAACGCGCGCaaCUA------------GUUG- -5'
11297 3' -46.3 NC_003083.1 + 78518 0.66 0.99949
Target:  5'- gUGAUCAGUUgGCGCGCaaacguAUCAACg -3'
miRNA:   3'- -AUUGGUUAAaCGCGCGcaac--UAGUUG- -5'
11297 3' -46.3 NC_003083.1 + 5936 0.66 0.99949
Target:  5'- ---aCAAUUUGUGCGCaUUGAUaAACu -3'
miRNA:   3'- auugGUUAAACGCGCGcAACUAgUUG- -5'
11297 3' -46.3 NC_003083.1 + 71283 0.66 0.999358
Target:  5'- -cACCAGUgUGCGCGUGcauGUCAAa -3'
miRNA:   3'- auUGGUUAaACGCGCGCaacUAGUUg -5'
11297 3' -46.3 NC_003083.1 + 102141 0.66 0.999358
Target:  5'- -cGCCG---UGCGCGCGUUGu---ACg -3'
miRNA:   3'- auUGGUuaaACGCGCGCAACuaguUG- -5'
11297 3' -46.3 NC_003083.1 + 68097 0.67 0.998495
Target:  5'- uUGACaaaAAaUUGCGCaUGUUGAUUAACa -3'
miRNA:   3'- -AUUGg--UUaAACGCGcGCAACUAGUUG- -5'
11297 3' -46.3 NC_003083.1 + 31796 0.67 0.998495
Target:  5'- aUAACCAuaa-GCGCGCacgucgacgUGAUCAAUa -3'
miRNA:   3'- -AUUGGUuaaaCGCGCGca-------ACUAGUUG- -5'
11297 3' -46.3 NC_003083.1 + 71840 0.67 0.998495
Target:  5'- uUGGCCAca-UGUGCGUGUU--UCAACa -3'
miRNA:   3'- -AUUGGUuaaACGCGCGCAAcuAGUUG- -5'
11297 3' -46.3 NC_003083.1 + 9261 0.68 0.998167
Target:  5'- cGGCCAGUUUGUgcgucaGCGCGUUGca-AAUa -3'
miRNA:   3'- aUUGGUUAAACG------CGCGCAACuagUUG- -5'
11297 3' -46.3 NC_003083.1 + 30662 0.68 0.998167
Target:  5'- aAGCCGAcaaUGUGCGgGUUGuagCGGCg -3'
miRNA:   3'- aUUGGUUaa-ACGCGCgCAACua-GUUG- -5'
11297 3' -46.3 NC_003083.1 + 95177 0.68 0.997329
Target:  5'- gAAUCAGUUUGUGUGUGUUGuugCugguGCa -3'
miRNA:   3'- aUUGGUUAAACGCGCGCAACua-Gu---UG- -5'
11297 3' -46.3 NC_003083.1 + 72798 0.71 0.984159
Target:  5'- aAACCAuuucgucgccgGCGCGCGUuUGAcuuUCAACa -3'
miRNA:   3'- aUUGGUuaaa-------CGCGCGCA-ACU---AGUUG- -5'
11297 3' -46.3 NC_003083.1 + 73647 0.71 0.983334
Target:  5'- cAACCAAc--GCGgGCGUUGuugCAACg -3'
miRNA:   3'- aUUGGUUaaaCGCgCGCAACua-GUUG- -5'
11297 3' -46.3 NC_003083.1 + 58665 0.73 0.935645
Target:  5'- aUAACCAAUUaaaaUGCGUGCc--GAUCAACc -3'
miRNA:   3'- -AUUGGUUAA----ACGCGCGcaaCUAGUUG- -5'
11297 3' -46.3 NC_003083.1 + 45866 0.74 0.930061
Target:  5'- ----gGGUUUGCGCGCGUguuuGUCAACg -3'
miRNA:   3'- auuggUUAAACGCGCGCAac--UAGUUG- -5'
11297 3' -46.3 NC_003083.1 + 22912 0.74 0.918013
Target:  5'- uUGACCAAUaccCG-GCGUUGGUCAACa -3'
miRNA:   3'- -AUUGGUUAaacGCgCGCAACUAGUUG- -5'
11297 3' -46.3 NC_003083.1 + 6048 0.75 0.897758
Target:  5'- aAACCAAguaUGCGCGCGUuuUGAaCAAUu -3'
miRNA:   3'- aUUGGUUaa-ACGCGCGCA--ACUaGUUG- -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.