miRNA display CGI


Results 1 - 20 of 77 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
25559 3' -60.3 NC_005337.1 + 102755 1.11 0.00091
Target:  5'- aCCAGCCCACCAUCCACCCGGAGGUCGa -3'
miRNA:   3'- -GGUCGGGUGGUAGGUGGGCCUCCAGC- -5'
25559 3' -60.3 NC_005337.1 + 121751 0.81 0.099137
Target:  5'- gCCAGCUCACgGUgaACCCGGAGGUCa -3'
miRNA:   3'- -GGUCGGGUGgUAggUGGGCCUCCAGc -5'
25559 3' -60.3 NC_005337.1 + 90872 0.76 0.219083
Target:  5'- aCCAGCgcggCCACCGUcuuggugcccaCCGCCCGGGGGUa- -3'
miRNA:   3'- -GGUCG----GGUGGUA-----------GGUGGGCCUCCAgc -5'
25559 3' -60.3 NC_005337.1 + 59371 0.74 0.309585
Target:  5'- gCCAGCCgCGCCAUCaCGCCCccGGcguccucGGUCGg -3'
miRNA:   3'- -GGUCGG-GUGGUAG-GUGGG--CCu------CCAGC- -5'
25559 3' -60.3 NC_005337.1 + 61677 0.73 0.338089
Target:  5'- aCCAcGCCCGCgCG-CgACCCGGAGGcgUCGg -3'
miRNA:   3'- -GGU-CGGGUG-GUaGgUGGGCCUCC--AGC- -5'
25559 3' -60.3 NC_005337.1 + 75210 0.72 0.392426
Target:  5'- aCCAGC--GCCAgCCACCCGGA-GUCGu -3'
miRNA:   3'- -GGUCGggUGGUaGGUGGGCCUcCAGC- -5'
25559 3' -60.3 NC_005337.1 + 92293 0.72 0.400639
Target:  5'- gCAGCUguCCAUCC-UCCGGAcGGUCa -3'
miRNA:   3'- gGUCGGguGGUAGGuGGGCCU-CCAGc -5'
25559 3' -60.3 NC_005337.1 + 46381 0.72 0.400639
Target:  5'- gCCAGCgCgucaGCCAggUCCugCCGcGAGGUCa -3'
miRNA:   3'- -GGUCGgG----UGGU--AGGugGGC-CUCCAGc -5'
25559 3' -60.3 NC_005337.1 + 98255 0.71 0.434559
Target:  5'- gCAGUCCgugucGCCGUCCACgaCGGuGGUCa -3'
miRNA:   3'- gGUCGGG-----UGGUAGGUGg-GCCuCCAGc -5'
25559 3' -60.3 NC_005337.1 + 23501 0.71 0.434559
Target:  5'- uCCGGUCCA-UGUCCAUCCGGGGcUCGa -3'
miRNA:   3'- -GGUCGGGUgGUAGGUGGGCCUCcAGC- -5'
25559 3' -60.3 NC_005337.1 + 76634 0.71 0.440665
Target:  5'- aCgAGCaccaCCACCGUCCAguuggugaacacguCCCGGAGGUg- -3'
miRNA:   3'- -GgUCG----GGUGGUAGGU--------------GGGCCUCCAgc -5'
25559 3' -60.3 NC_005337.1 + 9139 0.7 0.461062
Target:  5'- aCAGCgCGCUcgCCGCuuGGcGGUCGc -3'
miRNA:   3'- gGUCGgGUGGuaGGUGggCCuCCAGC- -5'
25559 3' -60.3 NC_005337.1 + 111525 0.7 0.470085
Target:  5'- aCCgAGCCCGCgcUCCGCCgCGuGcAGGUCGg -3'
miRNA:   3'- -GG-UCGGGUGguAGGUGG-GC-C-UCCAGC- -5'
25559 3' -60.3 NC_005337.1 + 46056 0.7 0.479197
Target:  5'- gCAGCCCGCC-UCCuCgaGGAGGcCGg -3'
miRNA:   3'- gGUCGGGUGGuAGGuGggCCUCCaGC- -5'
25559 3' -60.3 NC_005337.1 + 103596 0.7 0.479197
Target:  5'- aCAGCCCGCCAUguuguuauaCC-CCCGGaAGGcccgCGa -3'
miRNA:   3'- gGUCGGGUGGUA---------GGuGGGCC-UCCa---GC- -5'
25559 3' -60.3 NC_005337.1 + 132956 0.7 0.497675
Target:  5'- gCGGCCUcguGCaCGUgCACCUGGuGGUCGu -3'
miRNA:   3'- gGUCGGG---UG-GUAgGUGGGCCuCCAGC- -5'
25559 3' -60.3 NC_005337.1 + 42617 0.7 0.497675
Target:  5'- --cGCCCGCCAUgugcggCACCgCGGuGGUCGa -3'
miRNA:   3'- gguCGGGUGGUAg-----GUGG-GCCuCCAGC- -5'
25559 3' -60.3 NC_005337.1 + 13849 0.7 0.507033
Target:  5'- gCAGUCCGCCG-CCugCCGGcucAGGaCGg -3'
miRNA:   3'- gGUCGGGUGGUaGGugGGCC---UCCaGC- -5'
25559 3' -60.3 NC_005337.1 + 120410 0.7 0.507033
Target:  5'- gCuGCCCACgA-CCGuCCCGGAGG-CGg -3'
miRNA:   3'- gGuCGGGUGgUaGGU-GGGCCUCCaGC- -5'
25559 3' -60.3 NC_005337.1 + 75196 0.69 0.535534
Target:  5'- uCCGGCCUGuCCAcggucUUCugCCGGcccAGGUCGg -3'
miRNA:   3'- -GGUCGGGU-GGU-----AGGugGGCC---UCCAGC- -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.