miRNA display CGI


Results 1 - 17 of 17 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
21854 5' -50.7 NC_004902.1 + 34525 0.66 0.872322
Target:  5'- --aGACCAguucCGUCGCCAGCgagGUCucGCAGa -3'
miRNA:   3'- cugUUGGU----GUAGCGGUUG---UAGu-CGUC- -5'
21854 5' -50.7 NC_004902.1 + 23313 0.66 0.855087
Target:  5'- -gUAACCuGCAcCGCCAGgacagcuacaguCAUCAGCAGc -3'
miRNA:   3'- cuGUUGG-UGUaGCGGUU------------GUAGUCGUC- -5'
21854 5' -50.7 NC_004902.1 + 36714 0.67 0.836801
Target:  5'- aGCAGCCA---CGCCAGCAUCAaaCGGg -3'
miRNA:   3'- cUGUUGGUguaGCGGUUGUAGUc-GUC- -5'
21854 5' -50.7 NC_004902.1 + 4028 0.67 0.817547
Target:  5'- aGACGACCAguaugauuCAuUCGCgAAaaaaGUCAGCGGg -3'
miRNA:   3'- -CUGUUGGU--------GU-AGCGgUUg---UAGUCGUC- -5'
21854 5' -50.7 NC_004902.1 + 40804 0.67 0.817547
Target:  5'- uGAC-ACUugAUCGCCcAGCAgaUCAGCu- -3'
miRNA:   3'- -CUGuUGGugUAGCGG-UUGU--AGUCGuc -5'
21854 5' -50.7 NC_004902.1 + 34086 0.67 0.817547
Target:  5'- uGCAGCCaucaacACGUCGCagauCAGCG-CAGCGGg -3'
miRNA:   3'- cUGUUGG------UGUAGCG----GUUGUaGUCGUC- -5'
21854 5' -50.7 NC_004902.1 + 16264 0.68 0.787053
Target:  5'- gGGCAucACCAC--UGCCaAGCAUgCAGCAGa -3'
miRNA:   3'- -CUGU--UGGUGuaGCGG-UUGUA-GUCGUC- -5'
21854 5' -50.7 NC_004902.1 + 1438 0.68 0.776508
Target:  5'- gGGCAGcCCACAaCGUCGACAgcccugaGGCGGg -3'
miRNA:   3'- -CUGUU-GGUGUaGCGGUUGUag-----UCGUC- -5'
21854 5' -50.7 NC_004902.1 + 43906 0.68 0.776508
Target:  5'- aGGCAGCgCGCAcCGCUgcguACGccUCAGCAGg -3'
miRNA:   3'- -CUGUUG-GUGUaGCGGu---UGU--AGUCGUC- -5'
21854 5' -50.7 NC_004902.1 + 25410 0.68 0.754927
Target:  5'- uGACAGCCACG--GUCAauGCGUguGCAGc -3'
miRNA:   3'- -CUGUUGGUGUagCGGU--UGUAguCGUC- -5'
21854 5' -50.7 NC_004902.1 + 4253 0.69 0.721532
Target:  5'- -uCGGCgGCA-CGCCGAagaAUCGGCAGa -3'
miRNA:   3'- cuGUUGgUGUaGCGGUUg--UAGUCGUC- -5'
21854 5' -50.7 NC_004902.1 + 9451 0.7 0.674509
Target:  5'- -uCAGCCGCugaGCCAGCGuagcaaaUCAGCGGc -3'
miRNA:   3'- cuGUUGGUGuagCGGUUGU-------AGUCGUC- -5'
21854 5' -50.7 NC_004902.1 + 9265 0.7 0.652406
Target:  5'- aGAUGGCCACAauUCcgGCCAgACcUCAGCAGg -3'
miRNA:   3'- -CUGUUGGUGU--AG--CGGU-UGuAGUCGUC- -5'
21854 5' -50.7 NC_004902.1 + 23837 0.72 0.536654
Target:  5'- -uCAGCCGCAUgggauuccugcCGCCGACAUCGGaAGg -3'
miRNA:   3'- cuGUUGGUGUA-----------GCGGUUGUAGUCgUC- -5'
21854 5' -50.7 NC_004902.1 + 25012 0.72 0.514198
Target:  5'- uGACAACCACAcccUUGCCuugguucaAGCGuacUCAGCAGc -3'
miRNA:   3'- -CUGUUGGUGU---AGCGG--------UUGU---AGUCGUC- -5'
21854 5' -50.7 NC_004902.1 + 6820 0.76 0.343509
Target:  5'- aGCAGCCugAUCaGCCAGCAugUCAGCc- -3'
miRNA:   3'- cUGUUGGugUAG-CGGUUGU--AGUCGuc -5'
21854 5' -50.7 NC_004902.1 + 8338 1.09 0.002095
Target:  5'- gGACAACCACAUCGCCAACAUCAGCAGu -3'
miRNA:   3'- -CUGUUGGUGUAGCGGUUGUAGUCGUC- -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.