miRNA display CGI


Results 1 - 20 of 53 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
17044 3' -56 NC_004333.2 + 36276 0.66 0.658133
Target:  5'- uGCGCAUGccGGGcCGCGaCGAcaaGgUGCUCGc -3'
miRNA:   3'- -CGCGUAU--CUC-GCGCaGCU---CgACGAGC- -5'
17044 3' -56 NC_004333.2 + 8183 0.66 0.658133
Target:  5'- cGCGUAcucaguGAGCgGCGUCGAgacguuuugaacGCUGCgCGg -3'
miRNA:   3'- -CGCGUau----CUCG-CGCAGCU------------CGACGaGC- -5'
17044 3' -56 NC_004333.2 + 27245 0.66 0.647084
Target:  5'- -gGCGUAGccgccGgGCGUCGGGUUGCa-- -3'
miRNA:   3'- cgCGUAUCu----CgCGCAGCUCGACGagc -5'
17044 3' -56 NC_004333.2 + 21168 0.66 0.624956
Target:  5'- uCGCGUAGGauuCGUCGAugugcugccGCUGCUCGa -3'
miRNA:   3'- cGCGUAUCUcgcGCAGCU---------CGACGAGC- -5'
17044 3' -56 NC_004333.2 + 12283 0.66 0.624956
Target:  5'- gGCGUAUAacggcGuGCGCGUCGcaacgGGCcgGCUCu -3'
miRNA:   3'- -CGCGUAU-----CuCGCGCAGC-----UCGa-CGAGc -5'
17044 3' -56 NC_004333.2 + 43562 0.66 0.624956
Target:  5'- uCGCAUuaauGGCGUGUCGcGC-GCUCGc -3'
miRNA:   3'- cGCGUAuc--UCGCGCAGCuCGaCGAGC- -5'
17044 3' -56 NC_004333.2 + 44967 0.66 0.613897
Target:  5'- gGgGCGggcGGCGCGcCGGGCcgGCUCa -3'
miRNA:   3'- -CgCGUaucUCGCGCaGCUCGa-CGAGc -5'
17044 3' -56 NC_004333.2 + 20050 0.66 0.613897
Target:  5'- cGCGCAguacGGAaacgcGCGCGUUGAgauuuucggcguGCcGCUCGa -3'
miRNA:   3'- -CGCGUa---UCU-----CGCGCAGCU------------CGaCGAGC- -5'
17044 3' -56 NC_004333.2 + 19307 0.66 0.613897
Target:  5'- cGCGCGgcacGAGCGC-UUGAGCgcgccgGCUaCGa -3'
miRNA:   3'- -CGCGUau--CUCGCGcAGCUCGa-----CGA-GC- -5'
17044 3' -56 NC_004333.2 + 36348 0.66 0.602853
Target:  5'- gGCGCAagcUGGAGCGCGcCGucgcgcugauGGCcGCgUCGu -3'
miRNA:   3'- -CGCGU---AUCUCGCGCaGC----------UCGaCG-AGC- -5'
17044 3' -56 NC_004333.2 + 10996 0.66 0.602853
Target:  5'- cGCGCGUcgugAGcGGCGUGUCGccgcGCUGCg-- -3'
miRNA:   3'- -CGCGUA----UC-UCGCGCAGCu---CGACGagc -5'
17044 3' -56 NC_004333.2 + 47072 0.67 0.591836
Target:  5'- cGCGCAacguGAGCGCGaucuuUCGcGCcGCUCc -3'
miRNA:   3'- -CGCGUau--CUCGCGC-----AGCuCGaCGAGc -5'
17044 3' -56 NC_004333.2 + 44739 0.67 0.580852
Target:  5'- cGCGCAggucaaccaggUGGAGacCGCGcCGcAGCUGUUCu -3'
miRNA:   3'- -CGCGU-----------AUCUC--GCGCaGC-UCGACGAGc -5'
17044 3' -56 NC_004333.2 + 18806 0.67 0.559022
Target:  5'- cGCGCGgccgcAGGGCGCGU---GCUGCUa- -3'
miRNA:   3'- -CGCGUa----UCUCGCGCAgcuCGACGAgc -5'
17044 3' -56 NC_004333.2 + 39271 0.68 0.537428
Target:  5'- gGCGCAcgcGcGCGCGaUCGcagguuGGCUGCUCa -3'
miRNA:   3'- -CGCGUau-CuCGCGC-AGC------UCGACGAGc -5'
17044 3' -56 NC_004333.2 + 41529 0.68 0.537428
Target:  5'- aGCGCGccGAGCGCGcugcCGAGC-GCgaUCGa -3'
miRNA:   3'- -CGCGUauCUCGCGCa---GCUCGaCG--AGC- -5'
17044 3' -56 NC_004333.2 + 24099 0.68 0.536356
Target:  5'- aGCGCAU-GAGCGCGUUGAucgacggacagucGCagcgcgcaaUGUUCGc -3'
miRNA:   3'- -CGCGUAuCUCGCGCAGCU-------------CG---------ACGAGC- -5'
17044 3' -56 NC_004333.2 + 8963 0.68 0.535285
Target:  5'- aCGCAgcucggccgacgGGAGCGCGggcCGuGCUGC-CGg -3'
miRNA:   3'- cGCGUa-----------UCUCGCGCa--GCuCGACGaGC- -5'
17044 3' -56 NC_004333.2 + 6646 0.68 0.51613
Target:  5'- cGCGCucGGcAGCGCGcUCGGcGC-GCUCGa -3'
miRNA:   3'- -CGCGuaUC-UCGCGC-AGCU-CGaCGAGC- -5'
17044 3' -56 NC_004333.2 + 35796 0.68 0.505608
Target:  5'- cGCGCcgggcGGGGCGCGggCGGGC-GCUaCGg -3'
miRNA:   3'- -CGCGua---UCUCGCGCa-GCUCGaCGA-GC- -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.