miRNA display CGI


Results 1 - 20 of 31 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
28348 5' -54.9 NC_005946.1 + 878 0.7 0.724054
Target:  5'- aGUGGAUGAGGuugacguuuucguACugCUUAGAGUgCCu -3'
miRNA:   3'- cCGCCUGCUCC-------------UGugGGAUCUCAaGG- -5'
28348 5' -54.9 NC_005946.1 + 3012 0.71 0.632487
Target:  5'- aGGagGGACagGAGGAUGCCCaGGAuGUUCCc -3'
miRNA:   3'- -CCg-CCUG--CUCCUGUGGGaUCU-CAAGG- -5'
28348 5' -54.9 NC_005946.1 + 4632 0.73 0.5187
Target:  5'- aGGCGGugGGGGuCACgCC-AGAGUgcuucaucagggcUCCu -3'
miRNA:   3'- -CCGCCugCUCCuGUG-GGaUCUCA-------------AGG- -5'
28348 5' -54.9 NC_005946.1 + 8776 0.66 0.902903
Target:  5'- gGGCGucguACGAGGGucugguCACCCUgcccaggGGAGaUCCg -3'
miRNA:   3'- -CCGCc---UGCUCCU------GUGGGA-------UCUCaAGG- -5'
28348 5' -54.9 NC_005946.1 + 9324 0.71 0.683303
Target:  5'- gGGUGGACggGAGGACAgaggacagaagguCCCUAGGuGUcgcUCCc -3'
miRNA:   3'- -CCGCCUG--CUCCUGU-------------GGGAUCU-CA---AGG- -5'
28348 5' -54.9 NC_005946.1 + 12336 1.14 0.001298
Target:  5'- cGGCGGACGAGGACACCCUAGAGUUCCu -3'
miRNA:   3'- -CCGCCUGCUCCUGUGGGAUCUCAAGG- -5'
28348 5' -54.9 NC_005946.1 + 14635 0.67 0.876123
Target:  5'- aGGCcGACaAGGGCACCCUgcuGGAcgcuUUCCc -3'
miRNA:   3'- -CCGcCUGcUCCUGUGGGA---UCUc---AAGG- -5'
28348 5' -54.9 NC_005946.1 + 17082 0.67 0.853181
Target:  5'- gGGCuacGAUGAGaACGCCCUGGAGg--- -3'
miRNA:   3'- -CCGc--CUGCUCcUGUGGGAUCUCaagg -5'
28348 5' -54.9 NC_005946.1 + 28291 0.66 0.903542
Target:  5'- uGGCGGAaccggcaGAGGGCuuucuGCCCgucAGGG-UCUg -3'
miRNA:   3'- -CCGCCUg------CUCCUG-----UGGGa--UCUCaAGG- -5'
28348 5' -54.9 NC_005946.1 + 28558 0.71 0.663665
Target:  5'- aGGUGGACucgaaGGGGACgACCCUcacccuGUUCCa -3'
miRNA:   3'- -CCGCCUG-----CUCCUG-UGGGAucu---CAAGG- -5'
28348 5' -54.9 NC_005946.1 + 35255 0.7 0.704822
Target:  5'- gGGCauGGGCGAGGACGgCUgcGGGaugUCCu -3'
miRNA:   3'- -CCG--CCUGCUCCUGUgGGauCUCa--AGG- -5'
28348 5' -54.9 NC_005946.1 + 36388 0.66 0.909801
Target:  5'- uGCGGGC-AGGG-ACCCgGGAGacUUCCa -3'
miRNA:   3'- cCGCCUGcUCCUgUGGGaUCUC--AAGG- -5'
28348 5' -54.9 NC_005946.1 + 40126 0.66 0.889615
Target:  5'- cGGCGGGCauaaacaGAGGGgGCCUgacGGGGacCCu -3'
miRNA:   3'- -CCGCCUG-------CUCCUgUGGGa--UCUCaaGG- -5'
28348 5' -54.9 NC_005946.1 + 41211 0.72 0.611685
Target:  5'- gGGCGGugGAaaaGGACGaagucgcaCUAGAGUuUCCa -3'
miRNA:   3'- -CCGCCugCU---CCUGUgg------GAUCUCA-AGG- -5'
28348 5' -54.9 NC_005946.1 + 48471 0.69 0.77403
Target:  5'- aGGaaGAUGAGGGCuCCCUcuggcaGGGGUUCg -3'
miRNA:   3'- -CCgcCUGCUCCUGuGGGA------UCUCAAGg -5'
28348 5' -54.9 NC_005946.1 + 52358 0.71 0.653286
Target:  5'- gGGCcGGCGGGGACAUagaagagggCCUGGAGcUCUu -3'
miRNA:   3'- -CCGcCUGCUCCUGUG---------GGAUCUCaAGG- -5'
28348 5' -54.9 NC_005946.1 + 53431 0.66 0.915817
Target:  5'- cGUGGAcCGuGGACGCCaaaggggUAGAGgaCCu -3'
miRNA:   3'- cCGCCU-GCuCCUGUGGg------AUCUCaaGG- -5'
28348 5' -54.9 NC_005946.1 + 55646 0.67 0.861044
Target:  5'- cGGUGGGguUGAGGA-GCCCgugAGGGUaCCc -3'
miRNA:   3'- -CCGCCU--GCUCCUgUGGGa--UCUCAaGG- -5'
28348 5' -54.9 NC_005946.1 + 56459 0.66 0.903542
Target:  5'- uGCgGGGCGuGGAC-CUCUGGAGUc-- -3'
miRNA:   3'- cCG-CCUGCuCCUGuGGGAUCUCAagg -5'
28348 5' -54.9 NC_005946.1 + 61276 0.72 0.622082
Target:  5'- aGGCggGGACGGGGuucgACGCCUgcgAGAGgaCCg -3'
miRNA:   3'- -CCG--CCUGCUCC----UGUGGGa--UCUCaaGG- -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.