miRNA display CGI


Results 1 - 20 of 24 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
1385 5' -54.6 NC_001335.1 + 25842 0.67 0.627618
Target:  5'- -aCGGCucucaGCGAG-CUgGCUGCGGCCa -3'
miRNA:   3'- ucGUCGuca--UGCUUaGA-CGACGCCGG- -5'
1385 5' -54.6 NC_001335.1 + 47764 0.68 0.582857
Target:  5'- cAGcCAGCaAGgaucGCGGcgUUGCUGCGGUg -3'
miRNA:   3'- -UC-GUCG-UCa---UGCUuaGACGACGCCGg -5'
1385 5' -54.6 NC_001335.1 + 43770 0.7 0.443577
Target:  5'- cAGCGGCAGcaaugucUugGuGUCUGUcacgcaGCGGCCa -3'
miRNA:   3'- -UCGUCGUC-------AugCuUAGACGa-----CGCCGG- -5'
1385 5' -54.6 NC_001335.1 + 24126 0.74 0.287876
Target:  5'- gAGCGGCGGUGCugg-C-GCUcGCGGCCa -3'
miRNA:   3'- -UCGUCGUCAUGcuuaGaCGA-CGCCGG- -5'
1385 5' -54.6 NC_001335.1 + 32580 0.75 0.227382
Target:  5'- gAGCugccuGCGGggcGCGAGaCUGCUGCuGGCCa -3'
miRNA:   3'- -UCGu----CGUCa--UGCUUaGACGACG-CCGG- -5'
1385 5' -54.6 NC_001335.1 + 51329 0.79 0.130751
Target:  5'- uGGCAGCgaacuaaaGGUuuGAGUCggGCUGCGGCCc -3'
miRNA:   3'- -UCGUCG--------UCAugCUUAGa-CGACGCCGG- -5'
1385 5' -54.6 NC_001335.1 + 48325 0.68 0.60519
Target:  5'- gGGcCAGCAGgACGuggCcGCUGCGGUg -3'
miRNA:   3'- -UC-GUCGUCaUGCuuaGaCGACGCCGg -5'
1385 5' -54.6 NC_001335.1 + 27174 0.66 0.683572
Target:  5'- uGGCGGCaAGgcCGAugauggCUGCUGCgauGGUCu -3'
miRNA:   3'- -UCGUCG-UCauGCUua----GACGACG---CCGG- -5'
1385 5' -54.6 NC_001335.1 + 10000 0.66 0.716621
Target:  5'- -aCGGCGGUAUGcagaUGCUGCcGCCu -3'
miRNA:   3'- ucGUCGUCAUGCuuagACGACGcCGG- -5'
1385 5' -54.6 NC_001335.1 + 34470 0.68 0.560695
Target:  5'- cAGCGGguGUACGAcGUgaGCcGCauccGGCCg -3'
miRNA:   3'- -UCGUCguCAUGCU-UAgaCGaCG----CCGG- -5'
1385 5' -54.6 NC_001335.1 + 1361 0.66 0.716621
Target:  5'- gGGCaccgGGguGUugGGG-CUGCUGCcaccGCCg -3'
miRNA:   3'- -UCG----UCguCAugCUUaGACGACGc---CGG- -5'
1385 5' -54.6 NC_001335.1 + 3052 0.67 0.661265
Target:  5'- cAGCAGCAGcGCGGAgagcaUCUgGUUGaUGGCa -3'
miRNA:   3'- -UCGUCGUCaUGCUU-----AGA-CGAC-GCCGg -5'
1385 5' -54.6 NC_001335.1 + 22929 0.67 0.627618
Target:  5'- uAGcCGGguGUGCGAAcCUccCUGCGGCg -3'
miRNA:   3'- -UC-GUCguCAUGCUUaGAc-GACGCCGg -5'
1385 5' -54.6 NC_001335.1 + 33098 1.13 0.00051
Target:  5'- aAGCAGCAGUACGAAUCUGCUGCGGCCa -3'
miRNA:   3'- -UCGUCGUCAUGCUUAGACGACGCCGG- -5'
1385 5' -54.6 NC_001335.1 + 4113 0.73 0.318581
Target:  5'- cGGCAGCGGUugGgGAUCU--UGuCGGCCu -3'
miRNA:   3'- -UCGUCGUCAugC-UUAGAcgAC-GCCGG- -5'
1385 5' -54.6 NC_001335.1 + 29150 0.72 0.378066
Target:  5'- cGCugaGGCAGUGgGGAUCUcgauccCUGUGGCCa -3'
miRNA:   3'- uCG---UCGUCAUgCUUAGAc-----GACGCCGG- -5'
1385 5' -54.6 NC_001335.1 + 39927 0.7 0.444573
Target:  5'- uGCAGUGGgagGCG-AUCUGaUGCGGCg -3'
miRNA:   3'- uCGUCGUCa--UGCuUAGACgACGCCGg -5'
1385 5' -54.6 NC_001335.1 + 5550 0.67 0.626496
Target:  5'- gGGCGGCGGUGcCGAgcagguagaugGUCUGUcggaucuUGgGGCUc -3'
miRNA:   3'- -UCGUCGUCAU-GCU-----------UAGACG-------ACgCCGG- -5'
1385 5' -54.6 NC_001335.1 + 3956 0.68 0.560695
Target:  5'- cGGCuGUAGUAgccgGAAUCgGCUGCaGCCc -3'
miRNA:   3'- -UCGuCGUCAUg---CUUAGaCGACGcCGG- -5'
1385 5' -54.6 NC_001335.1 + 36484 0.69 0.538771
Target:  5'- cGGCGGCAaccaGAAggUGCUGUGGUCg -3'
miRNA:   3'- -UCGUCGUcaugCUUagACGACGCCGG- -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.