miRNA display CGI


Results 1 - 15 of 15 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
16276 3' -56.7 NC_004084.1 + 55287 0.66 0.6907
Target:  5'- gGGUGuCGAUcGCUugcucagagAACUCCCUCUCa- -3'
miRNA:   3'- gCCAC-GCUGuUGG---------UUGAGGGGGAGcu -5'
16276 3' -56.7 NC_004084.1 + 23118 0.66 0.684306
Target:  5'- aGGUGaccgucgaaacgauCGAgGACCuccccagcgccgagGACuUCCCCCUCGGg -3'
miRNA:   3'- gCCAC--------------GCUgUUGG--------------UUG-AGGGGGAGCU- -5'
16276 3' -56.7 NC_004084.1 + 28046 0.67 0.637028
Target:  5'- uGGUGaCGAUuGCCAuaggucuuACUcggCCUCCUCGAg -3'
miRNA:   3'- gCCAC-GCUGuUGGU--------UGA---GGGGGAGCU- -5'
16276 3' -56.7 NC_004084.1 + 17075 0.67 0.637028
Target:  5'- gCGGUGUucgaGACCGACUCCCauuCUCa- -3'
miRNA:   3'- -GCCACGcug-UUGGUUGAGGGg--GAGcu -5'
16276 3' -56.7 NC_004084.1 + 49704 0.67 0.630556
Target:  5'- uGGUGCGuuCAGCCAucguucaccguuacgAgguCUCCUCUUCGAg -3'
miRNA:   3'- gCCACGCu-GUUGGU---------------U---GAGGGGGAGCU- -5'
16276 3' -56.7 NC_004084.1 + 29487 0.67 0.604693
Target:  5'- gGGUGCGGCGgugguucuccaGCUuggGGCUCCagccagCCUCGAu -3'
miRNA:   3'- gCCACGCUGU-----------UGG---UUGAGGg-----GGAGCU- -5'
16276 3' -56.7 NC_004084.1 + 3842 0.67 0.583235
Target:  5'- aGGUGUGGUAGuccugcugagUCAGCUCgCCCUCGGu -3'
miRNA:   3'- gCCACGCUGUU----------GGUUGAGgGGGAGCU- -5'
16276 3' -56.7 NC_004084.1 + 50937 0.69 0.509745
Target:  5'- -cGU-CGACGACCcugauCUCCUCCUCGAc -3'
miRNA:   3'- gcCAcGCUGUUGGuu---GAGGGGGAGCU- -5'
16276 3' -56.7 NC_004084.1 + 5140 0.69 0.509745
Target:  5'- uCGGcGUGGCGACCGACgucgUCCCUgaggcagcaCUCGAg -3'
miRNA:   3'- -GCCaCGCUGUUGGUUG----AGGGG---------GAGCU- -5'
16276 3' -56.7 NC_004084.1 + 11540 0.69 0.479417
Target:  5'- cCGGggcgugGCGGCAGCCGACgcaaacgCUgUCCUCGAg -3'
miRNA:   3'- -GCCa-----CGCUGUUGGUUGa------GG-GGGAGCU- -5'
16276 3' -56.7 NC_004084.1 + 51474 0.69 0.479417
Target:  5'- aCGG-GCGACGACCggUUCCa--UCGAc -3'
miRNA:   3'- -GCCaCGCUGUUGGuuGAGGgggAGCU- -5'
16276 3' -56.7 NC_004084.1 + 47495 0.71 0.359756
Target:  5'- aGGUGUucggcgaaGACGACgAACUCCCCgaUCGGg -3'
miRNA:   3'- gCCACG--------CUGUUGgUUGAGGGGg-AGCU- -5'
16276 3' -56.7 NC_004084.1 + 53398 0.72 0.33526
Target:  5'- uCGG-GCGGCuACCAACUCCUcgaggaCCUCGu -3'
miRNA:   3'- -GCCaCGCUGuUGGUUGAGGG------GGAGCu -5'
16276 3' -56.7 NC_004084.1 + 21452 0.75 0.225429
Target:  5'- cCGGacGUGACGaggaACCGGCUCgCCCUCGAg -3'
miRNA:   3'- -GCCa-CGCUGU----UGGUUGAGgGGGAGCU- -5'
16276 3' -56.7 NC_004084.1 + 45441 1.09 0.00089
Target:  5'- uCGGUGCGACAACCAACUCCCCCUCGAg -3'
miRNA:   3'- -GCCACGCUGUUGGUUGAGGGGGAGCU- -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.