miRNA display CGI


Results 1 - 11 of 11 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
19395 3' -61.4 NC_004685.1 + 12652 0.66 0.460143
Target:  5'- gCGCCgCGGCaCGcGGCcGcUGUCggagGUGCGg -3'
miRNA:   3'- -GCGG-GCCG-GC-CCGaCuACAGa---CACGU- -5'
19395 3' -61.4 NC_004685.1 + 19376 0.66 0.432244
Target:  5'- uGCCgugaccaGGCCGGGgaGuagGUCgGUGCGc -3'
miRNA:   3'- gCGGg------CCGGCCCgaCua-CAGaCACGU- -5'
19395 3' -61.4 NC_004685.1 + 43708 0.66 0.423165
Target:  5'- uGCCCGGCUGGaagaccgaUGGUGUCggcgGCAc -3'
miRNA:   3'- gCGGGCCGGCCcg------ACUACAGaca-CGU- -5'
19395 3' -61.4 NC_004685.1 + 16622 0.68 0.354862
Target:  5'- -aCCCGGCCGucGCUGGUGgagcGUGCAa -3'
miRNA:   3'- gcGGGCCGGCc-CGACUACaga-CACGU- -5'
19395 3' -61.4 NC_004685.1 + 42623 0.68 0.323746
Target:  5'- cCGCCagcauGGgUGGGCUGGUGaUCUGgcggGCGg -3'
miRNA:   3'- -GCGGg----CCgGCCCGACUAC-AGACa---CGU- -5'
19395 3' -61.4 NC_004685.1 + 27055 0.69 0.308967
Target:  5'- cCGCCCGGCCGGGg-GGUGUUcGg--- -3'
miRNA:   3'- -GCGGGCCGGCCCgaCUACAGaCacgu -5'
19395 3' -61.4 NC_004685.1 + 56896 0.69 0.301773
Target:  5'- cCGCUCGGCCuGGGC-GAUGgccugacGUGCAc -3'
miRNA:   3'- -GCGGGCCGG-CCCGaCUACaga----CACGU- -5'
19395 3' -61.4 NC_004685.1 + 58325 0.69 0.294709
Target:  5'- gGCCCGGCCGGcacaGCcucGGUGUCgggGCGg -3'
miRNA:   3'- gCGGGCCGGCC----CGa--CUACAGacaCGU- -5'
19395 3' -61.4 NC_004685.1 + 23599 0.69 0.294709
Target:  5'- uCGCCCGcGUCGGGCgcGAUGUCc-UGCc -3'
miRNA:   3'- -GCGGGC-CGGCCCGa-CUACAGacACGu -5'
19395 3' -61.4 NC_004685.1 + 2335 0.79 0.056585
Target:  5'- aGCCCGGCCGGGCggcaGGcagGUCUG-GCAc -3'
miRNA:   3'- gCGGGCCGGCCCGa---CUa--CAGACaCGU- -5'
19395 3' -61.4 NC_004685.1 + 2252 1.08 0.000403
Target:  5'- cCGCCCGGCCGGGCUGAUGUCUGUGCAu -3'
miRNA:   3'- -GCGGGCCGGCCCGACUACAGACACGU- -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.