miRNA display CGI


Results 1 - 20 of 56 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
5584 3' -63.1 NC_001806.1 + 73776 0.66 0.596285
Target:  5'- cGCUcGCAGGCCCaCCCGgacaCCcUUUUUGCc -3'
miRNA:   3'- -CGA-CGUCCGGG-GGGC----GGcAGGAACGu -5'
5584 3' -63.1 NC_001806.1 + 114570 0.66 0.596285
Target:  5'- cGCgGCAGGUCCCCC-UgGUCCccccgGCu -3'
miRNA:   3'- -CGaCGUCCGGGGGGcGgCAGGaa---CGu -5'
5584 3' -63.1 NC_001806.1 + 22932 0.66 0.586505
Target:  5'- --cGCGGGCCccgcuuCCCCGCCGcgCC--GCAc -3'
miRNA:   3'- cgaCGUCCGG------GGGGCGGCa-GGaaCGU- -5'
5584 3' -63.1 NC_001806.1 + 2301 0.66 0.585529
Target:  5'- gGCgGCccccccgAGGCCCCgCCGCCGgccaggUCCUcGCc -3'
miRNA:   3'- -CGaCG-------UCCGGGG-GGCGGC------AGGAaCGu -5'
5584 3' -63.1 NC_001806.1 + 47349 0.66 0.576755
Target:  5'- aGC-GCGGGCCCCgCGCUauGUaCCaUGCu -3'
miRNA:   3'- -CGaCGUCCGGGGgGCGG--CA-GGaACGu -5'
5584 3' -63.1 NC_001806.1 + 20147 0.66 0.576755
Target:  5'- cGCcGgAGagacccGCCCCCCGCCGcCCggGCc -3'
miRNA:   3'- -CGaCgUC------CGGGGGGCGGCaGGaaCGu -5'
5584 3' -63.1 NC_001806.1 + 132067 0.66 0.567042
Target:  5'- aGC-GUcgugGGGCCCgCCCGCCGccCCUcGCGc -3'
miRNA:   3'- -CGaCG----UCCGGG-GGGCGGCa-GGAaCGU- -5'
5584 3' -63.1 NC_001806.1 + 53283 0.66 0.567042
Target:  5'- cGCcGUuGaGCCCCUCGCCcGUCCUcGCc -3'
miRNA:   3'- -CGaCGuC-CGGGGGGCGG-CAGGAaCGu -5'
5584 3' -63.1 NC_001806.1 + 71879 0.66 0.557372
Target:  5'- -aUGUGGGCCCUCgCGaCGUCCUguccGCGg -3'
miRNA:   3'- cgACGUCCGGGGG-GCgGCAGGAa---CGU- -5'
5584 3' -63.1 NC_001806.1 + 58225 0.66 0.557372
Target:  5'- cUUGaGGGUgCCCCCGCCGaCCU-GCAg -3'
miRNA:   3'- cGACgUCCG-GGGGGCGGCaGGAaCGU- -5'
5584 3' -63.1 NC_001806.1 + 26262 0.66 0.557372
Target:  5'- gGCaGCccGGGCCCCCCGCgG-CCgagacuaGCGa -3'
miRNA:   3'- -CGaCG--UCCGGGGGGCGgCaGGaa-----CGU- -5'
5584 3' -63.1 NC_001806.1 + 94721 0.67 0.528666
Target:  5'- aGCUGCGGcgguaccuGCCCCaCGCCG-CCggGCu -3'
miRNA:   3'- -CGACGUC--------CGGGGgGCGGCaGGaaCGu -5'
5584 3' -63.1 NC_001806.1 + 66423 0.67 0.528666
Target:  5'- uGCgUGCggugGGGCgCCCCCGCagGUCCggcUGCc -3'
miRNA:   3'- -CG-ACG----UCCG-GGGGGCGg-CAGGa--ACGu -5'
5584 3' -63.1 NC_001806.1 + 89532 0.67 0.519216
Target:  5'- uGCUGCGcGGCgCCCCgGCCGgcggCCcgGUu -3'
miRNA:   3'- -CGACGU-CCG-GGGGgCGGCa---GGaaCGu -5'
5584 3' -63.1 NC_001806.1 + 79401 0.67 0.519216
Target:  5'- --gGC-GGCCCCgCGCCccUCCUUGCc -3'
miRNA:   3'- cgaCGuCCGGGGgGCGGc-AGGAACGu -5'
5584 3' -63.1 NC_001806.1 + 53792 0.67 0.519216
Target:  5'- cGCagGCAGGCCCgaaUGCCGUCUccGCu -3'
miRNA:   3'- -CGa-CGUCCGGGgg-GCGGCAGGaaCGu -5'
5584 3' -63.1 NC_001806.1 + 22668 0.67 0.519216
Target:  5'- cGCcGCGGGgaUCCUCGCCGcCCUgggGCGg -3'
miRNA:   3'- -CGaCGUCCg-GGGGGCGGCaGGAa--CGU- -5'
5584 3' -63.1 NC_001806.1 + 118748 0.67 0.509834
Target:  5'- gGCcGCGGGaauCCCCUgGCCGcCCUgaUGCGc -3'
miRNA:   3'- -CGaCGUCC---GGGGGgCGGCaGGA--ACGU- -5'
5584 3' -63.1 NC_001806.1 + 138800 0.67 0.509834
Target:  5'- --cGCAGGCgCCCCCGgCGagCgUGCGu -3'
miRNA:   3'- cgaCGUCCG-GGGGGCgGCagGaACGU- -5'
5584 3' -63.1 NC_001806.1 + 84092 0.67 0.509834
Target:  5'- cGCUGCcgcggAGGCCCgucgcgccacggUCCGCCaGUCCUgggaaGCGc -3'
miRNA:   3'- -CGACG-----UCCGGG------------GGGCGG-CAGGAa----CGU- -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.