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
10594 5' -44.4 NC_002687.1 + 128702 0.66 1
Target:  5'- --cGUUAuGCCgUUGAuguagcaggAGCAGAGCCUg -3'
miRNA:   3'- acaUAGUuUGGaAACU---------UUGUCUCGGA- -5'
10594 5' -44.4 NC_002687.1 + 267952 0.67 1
Target:  5'- gGUAUCcagguuGCCUUUGAGGuCGGccGCCUg -3'
miRNA:   3'- aCAUAGuu----UGGAAACUUU-GUCu-CGGA- -5'
10594 5' -44.4 NC_002687.1 + 208987 0.67 1
Target:  5'- cGUuUCAGACCUggGAGACauugguguucAGAGCa- -3'
miRNA:   3'- aCAuAGUUUGGAaaCUUUG----------UCUCGga -5'
10594 5' -44.4 NC_002687.1 + 69064 0.67 1
Target:  5'- gGUGUCGGcgguGCCgccagUGuuuCAGAGCCa -3'
miRNA:   3'- aCAUAGUU----UGGaa---ACuuuGUCUCGGa -5'
10594 5' -44.4 NC_002687.1 + 181854 0.68 1
Target:  5'- aUGUGUgAAGCCca-GAAGCAGcAGCUg -3'
miRNA:   3'- -ACAUAgUUUGGaaaCUUUGUC-UCGGa -5'
10594 5' -44.4 NC_002687.1 + 146843 0.68 1
Target:  5'- uUGUGUUAAuCCacaUGAuagcAACGGAGCCUc -3'
miRNA:   3'- -ACAUAGUUuGGaa-ACU----UUGUCUCGGA- -5'
10594 5' -44.4 NC_002687.1 + 198632 0.66 1
Target:  5'- cGUAU--AAUCUUUGGAGCAaGGCCc -3'
miRNA:   3'- aCAUAguUUGGAAACUUUGUcUCGGa -5'
10594 5' -44.4 NC_002687.1 + 18569 0.67 1
Target:  5'- gGUGUCGuccuGCUgugUUGAAACGGAaCCg -3'
miRNA:   3'- aCAUAGUu---UGGa--AACUUUGUCUcGGa -5'
10594 5' -44.4 NC_002687.1 + 130538 0.67 1
Target:  5'- --aGUCAAuccGCCUUUGAAACuGucuuuGCCg -3'
miRNA:   3'- acaUAGUU---UGGAAACUUUGuCu----CGGa -5'
10594 5' -44.4 NC_002687.1 + 132214 0.69 0.999999
Target:  5'- -aUAUCGGACCUcgucuugacacUggcaauuauaUGAGACGGAGCCc -3'
miRNA:   3'- acAUAGUUUGGA-----------A----------ACUUUGUCUCGGa -5'
10594 5' -44.4 NC_002687.1 + 331277 0.69 0.999999
Target:  5'- uUGgAUCAGACauca-AAACAGAGCCUg -3'
miRNA:   3'- -ACaUAGUUUGgaaacUUUGUCUCGGA- -5'
10594 5' -44.4 NC_002687.1 + 30496 0.69 0.999998
Target:  5'- aUGUAggcGACCgguuUUGAAGCAGuGCCg -3'
miRNA:   3'- -ACAUaguUUGGa---AACUUUGUCuCGGa -5'
10594 5' -44.4 NC_002687.1 + 6366 0.7 0.999997
Target:  5'- ---cUCAGACCgcugcGAGACAuGAGCCUu -3'
miRNA:   3'- acauAGUUUGGaaa--CUUUGU-CUCGGA- -5'
10594 5' -44.4 NC_002687.1 + 309043 0.7 0.999995
Target:  5'- aGgggAUCAGAgCUUUGA-AguGAGCCUg -3'
miRNA:   3'- aCa--UAGUUUgGAAACUuUguCUCGGA- -5'
10594 5' -44.4 NC_002687.1 + 46814 0.73 0.999782
Target:  5'- aGUGUCAGGCUggaaagGGAACAGAGaCUUa -3'
miRNA:   3'- aCAUAGUUUGGaaa---CUUUGUCUC-GGA- -5'
10594 5' -44.4 NC_002687.1 + 155343 0.75 0.998745
Target:  5'- --cGUCGuACCaUUUGGAACAGAGCUg -3'
miRNA:   3'- acaUAGUuUGG-AAACUUUGUCUCGGa -5'
10594 5' -44.4 NC_002687.1 + 11528 0.8 0.956528
Target:  5'- cGUGUCAAACCUUccaaGAGACGGAGUUc -3'
miRNA:   3'- aCAUAGUUUGGAAa---CUUUGUCUCGGa -5'
10594 5' -44.4 NC_002687.1 + 331513 1.11 0.061614
Target:  5'- uUGUAUCAAACCUUUGAAACAGAGCCUg -3'
miRNA:   3'- -ACAUAGUUUGGAAACUUUGUCUCGGA- -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.