miRNA display CGI


Results 1 - 18 of 18 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
13393 3' -56.5 NC_003409.1 + 71163 0.66 0.86985
Target:  5'- aCCCCGG-GUGUCCgcgcuccgGAAACagacCUCUGAg -3'
miRNA:   3'- -GGGGCCaCACGGGa-------CUUUGa---GGGAUU- -5'
13393 3' -56.5 NC_003409.1 + 50828 0.66 0.863058
Target:  5'- -gCCGucgaGUGCCCUGAcccccgcgaccacuuGCUCCCUAAg -3'
miRNA:   3'- ggGGCca--CACGGGACUu--------------UGAGGGAUU- -5'
13393 3' -56.5 NC_003409.1 + 16182 0.66 0.838377
Target:  5'- aCCCUGGUGcaUGCCCaagGAGugUaCCUGc -3'
miRNA:   3'- -GGGGCCAC--ACGGGa--CUUugAgGGAUu -5'
13393 3' -56.5 NC_003409.1 + 113175 0.67 0.803857
Target:  5'- cCUCCGGgagGCCUUGGAGCgcgucgcCCCUAc -3'
miRNA:   3'- -GGGGCCacaCGGGACUUUGa------GGGAUu -5'
13393 3' -56.5 NC_003409.1 + 118214 0.68 0.737709
Target:  5'- uCCCCGGgaaccugGUGCCCUc---CUCCCc-- -3'
miRNA:   3'- -GGGGCCa------CACGGGAcuuuGAGGGauu -5'
13393 3' -56.5 NC_003409.1 + 118444 0.68 0.737709
Target:  5'- uCCCCGGgaaccugGUGCCCUc---CUCCCc-- -3'
miRNA:   3'- -GGGGCCa------CACGGGAcuuuGAGGGauu -5'
13393 3' -56.5 NC_003409.1 + 118398 0.68 0.737709
Target:  5'- uCCCCGGgaaccugGUGCCCUc---CUCCCc-- -3'
miRNA:   3'- -GGGGCCa------CACGGGAcuuuGAGGGauu -5'
13393 3' -56.5 NC_003409.1 + 118352 0.68 0.737709
Target:  5'- uCCCCGGgaaccugGUGCCCUc---CUCCCc-- -3'
miRNA:   3'- -GGGGCCa------CACGGGAcuuuGAGGGauu -5'
13393 3' -56.5 NC_003409.1 + 118306 0.68 0.737709
Target:  5'- uCCCCGGgaaccugGUGCCCUc---CUCCCc-- -3'
miRNA:   3'- -GGGGCCa------CACGGGAcuuuGAGGGauu -5'
13393 3' -56.5 NC_003409.1 + 118260 0.68 0.737709
Target:  5'- uCCCCGGgaaccugGUGCCCUc---CUCCCc-- -3'
miRNA:   3'- -GGGGCCa------CACGGGAcuuuGAGGGauu -5'
13393 3' -56.5 NC_003409.1 + 19812 0.69 0.717826
Target:  5'- aCCCCGGU-UGCCUgGAcGCgugCCCUGGu -3'
miRNA:   3'- -GGGGCCAcACGGGaCUuUGa--GGGAUU- -5'
13393 3' -56.5 NC_003409.1 + 87863 0.69 0.687465
Target:  5'- cCCCCGGcgucUGUGCgacgCCgGAGAC-CCCUGAc -3'
miRNA:   3'- -GGGGCC----ACACG----GGaCUUUGaGGGAUU- -5'
13393 3' -56.5 NC_003409.1 + 116227 0.7 0.66389
Target:  5'- gCCgCGGa-UGCCCUGAGcuuuuuauacuccuGCUCCCUGGg -3'
miRNA:   3'- -GGgGCCacACGGGACUU--------------UGAGGGAUU- -5'
13393 3' -56.5 NC_003409.1 + 71291 0.71 0.605088
Target:  5'- uCCCUGGUG-GUCCUGAAGCauacgcuggcuUCCCc-- -3'
miRNA:   3'- -GGGGCCACaCGGGACUUUG-----------AGGGauu -5'
13393 3' -56.5 NC_003409.1 + 118168 0.71 0.594799
Target:  5'- uCCCCGGgaaccugGUGCCCUc---CUCCCUc- -3'
miRNA:   3'- -GGGGCCa------CACGGGAcuuuGAGGGAuu -5'
13393 3' -56.5 NC_003409.1 + 107807 0.76 0.315024
Target:  5'- gCCaCGGUGggcacGcCCCUGGAGCUCCCUGc -3'
miRNA:   3'- gGG-GCCACa----C-GGGACUUUGAGGGAUu -5'
13393 3' -56.5 NC_003409.1 + 8677 0.77 0.296535
Target:  5'- aCCCCGGUGaGCCCUGAggcGugagaaguauuuuuaGCUCCCUc- -3'
miRNA:   3'- -GGGGCCACaCGGGACU---U---------------UGAGGGAuu -5'
13393 3' -56.5 NC_003409.1 + 56009 1.08 0.002483
Target:  5'- cCCCCGGUGUGCCCUGAAACUCCCUAAg -3'
miRNA:   3'- -GGGGCCACACGGGACUUUGAGGGAUU- -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.