miRNA display CGI


Results 1 - 13 of 13 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
13450 3' -50.8 NC_003409.1 + 56736 0.66 0.991069
Target:  5'- aCCGAAAUCGGUaagGaCCAGCCucccgggguucauggGCGUUAg -3'
miRNA:   3'- cGGCUUUAGUCA---CaGGUCGG---------------UGUAGU- -5'
13450 3' -50.8 NC_003409.1 + 117787 0.66 0.989216
Target:  5'- gGCCGGcAcgCGGUGUCaaccaGGCCAcCAUUc -3'
miRNA:   3'- -CGGCU-UuaGUCACAGg----UCGGU-GUAGu -5'
13450 3' -50.8 NC_003409.1 + 85243 0.66 0.987719
Target:  5'- gGCUGAcauAUUAGUGggcCUAGCCGCAg-- -3'
miRNA:   3'- -CGGCUu--UAGUCACa--GGUCGGUGUagu -5'
13450 3' -50.8 NC_003409.1 + 32213 0.67 0.984246
Target:  5'- cUUGAAAUagaccCAGUGUCCAGcCCACuUCu -3'
miRNA:   3'- cGGCUUUA-----GUCACAGGUC-GGUGuAGu -5'
13450 3' -50.8 NC_003409.1 + 117402 0.67 0.982252
Target:  5'- uGCCGAAGUCAGU-----GCCACAauuUCAu -3'
miRNA:   3'- -CGGCUUUAGUCAcagguCGGUGU---AGU- -5'
13450 3' -50.8 NC_003409.1 + 79097 0.67 0.982252
Target:  5'- cGCCGGAAU-----UUUAGCCACGUCAa -3'
miRNA:   3'- -CGGCUUUAgucacAGGUCGGUGUAGU- -5'
13450 3' -50.8 NC_003409.1 + 132023 0.67 0.980075
Target:  5'- gGCCGuGAAUCAGagcUGUCUcauAGCCGgGUCc -3'
miRNA:   3'- -CGGC-UUUAGUC---ACAGG---UCGGUgUAGu -5'
13450 3' -50.8 NC_003409.1 + 75395 0.67 0.977704
Target:  5'- gGCCGAAGUauGUGaUCAGUCACAUUc -3'
miRNA:   3'- -CGGCUUUAguCACaGGUCGGUGUAGu -5'
13450 3' -50.8 NC_003409.1 + 94321 0.68 0.972349
Target:  5'- gGCUGggGggggCGGUGUUgAGCUGCAUa- -3'
miRNA:   3'- -CGGCuuUa---GUCACAGgUCGGUGUAgu -5'
13450 3' -50.8 NC_003409.1 + 45380 0.69 0.955032
Target:  5'- gGCCGuuguAAGUCAGcGUCagGGCCACGUUu -3'
miRNA:   3'- -CGGC----UUUAGUCaCAGg-UCGGUGUAGu -5'
13450 3' -50.8 NC_003409.1 + 14408 0.69 0.955032
Target:  5'- uGUCGAAGUaCAG-GUCCAccGCCACGcgCAg -3'
miRNA:   3'- -CGGCUUUA-GUCaCAGGU--CGGUGUa-GU- -5'
13450 3' -50.8 NC_003409.1 + 51255 0.73 0.81409
Target:  5'- uGCaCGAuuacggUGGUGUCCGGCCAUGUCu -3'
miRNA:   3'- -CG-GCUuua---GUCACAGGUCGGUGUAGu -5'
13450 3' -50.8 NC_003409.1 + 116323 1.12 0.005403
Target:  5'- uGCCGAAAUCAGUGUCCAGCCACAUCAg -3'
miRNA:   3'- -CGGCUUUAGUCACAGGUCGGUGUAGU- -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.