miRNA display CGI


Results 1 - 20 of 40 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
13095 3' -58.4 NC_003401.1 + 133709 0.75 0.245349
Target:  5'- cGGguGCCCGGCGGUCCg---GGCGGg -3'
miRNA:   3'- aUCguCGGGUCGUCGGGaugaUCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133636 0.71 0.418307
Target:  5'- -cGCAGCuggCCGGCAGCCCUACUc---- -3'
miRNA:   3'- auCGUCG---GGUCGUCGGGAUGAucguc -5'
13095 3' -58.4 NC_003401.1 + 133604 0.81 0.093512
Target:  5'- cAGCuGCaCAGCAGCCCUAgUAGCAGg -3'
miRNA:   3'- aUCGuCGgGUCGUCGGGAUgAUCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133529 1.06 0.001673
Target:  5'- cUAGCAGCCCAGCAGCCCUACUAGCAGc -3'
miRNA:   3'- -AUCGUCGGGUCGUCGGGAUGAUCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133489 1.06 0.001673
Target:  5'- cUAGCAGCCCAGCAGCCCUACUAGCAGc -3'
miRNA:   3'- -AUCGUCGGGUCGUCGGGAUGAUCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133449 1.06 0.001673
Target:  5'- cUAGCAGCCCAGCAGCCCUACUAGCAGc -3'
miRNA:   3'- -AUCGUCGGGUCGUCGGGAUGAUCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133409 1.06 0.001673
Target:  5'- cUAGCAGCCCAGCAGCCCUACUAGCAGc -3'
miRNA:   3'- -AUCGUCGGGUCGUCGGGAUGAUCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133369 1.06 0.001673
Target:  5'- cUAGCAGCCCAGCAGCCCUACUAGCAGc -3'
miRNA:   3'- -AUCGUCGGGUCGUCGGGAUGAUCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133344 0.79 0.125656
Target:  5'- ----nGCCCAGCAGCCCUACUaucaagccaucaGGCAGg -3'
miRNA:   3'- aucguCGGGUCGUCGGGAUGA------------UCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133297 0.73 0.319562
Target:  5'- uUAGCaAGCa-AGCAGCCCUACUguccccucagcaAGCAGg -3'
miRNA:   3'- -AUCG-UCGggUCGUCGGGAUGA------------UCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133124 0.84 0.060359
Target:  5'- aAGCAGgCCagcgAGCAGCCCUACUAGCAa -3'
miRNA:   3'- aUCGUCgGG----UCGUCGGGAUGAUCGUc -5'
13095 3' -58.4 NC_003401.1 + 133096 0.7 0.445739
Target:  5'- ---aAG-CCAGCAGCCCUACUguccccucagcaAGCAGg -3'
miRNA:   3'- aucgUCgGGUCGUCGGGAUGA------------UCGUC- -5'
13095 3' -58.4 NC_003401.1 + 133004 0.67 0.646502
Target:  5'- aAGCAGgCCAGCgAGCaagcaggCCUACUguccccucagcaAGCAGg -3'
miRNA:   3'- aUCGUCgGGUCG-UCG-------GGAUGA------------UCGUC- -5'
13095 3' -58.4 NC_003401.1 + 132539 0.68 0.595248
Target:  5'- aAGCGGCCCGGC-GCgCgGCgcggGGCGGc -3'
miRNA:   3'- aUCGUCGGGUCGuCGgGaUGa---UCGUC- -5'
13095 3' -58.4 NC_003401.1 + 132451 0.67 0.668439
Target:  5'- cGGCGgcGCCCGGCgcgcgGGCCCgggggGCgcGCGGg -3'
miRNA:   3'- aUCGU--CGGGUCG-----UCGGGa----UGauCGUC- -5'
13095 3' -58.4 NC_003401.1 + 132391 0.67 0.63708
Target:  5'- aUGGCGGCC--GCGGCCCgGC-GGCGGc -3'
miRNA:   3'- -AUCGUCGGguCGUCGGGaUGaUCGUC- -5'
13095 3' -58.4 NC_003401.1 + 126025 0.68 0.57447
Target:  5'- cGGUGGCCCGGCAGUCaaaguuUUGGCAc -3'
miRNA:   3'- aUCGUCGGGUCGUCGGgau---GAUCGUc -5'
13095 3' -58.4 NC_003401.1 + 125699 0.68 0.584841
Target:  5'- aGGCGGCCauCAGC-GCCCUGggaAGCGGg -3'
miRNA:   3'- aUCGUCGG--GUCGuCGGGAUga-UCGUC- -5'
13095 3' -58.4 NC_003401.1 + 119803 0.7 0.445739
Target:  5'- aGGCGGCgCAGCGGCaCCgagGCUAaacagcgcGCAGg -3'
miRNA:   3'- aUCGUCGgGUCGUCG-GGa--UGAU--------CGUC- -5'
13095 3' -58.4 NC_003401.1 + 105846 0.66 0.709773
Target:  5'- cAGUAGCCCgugGGCuGUCCgUACUcguacGGCGGg -3'
miRNA:   3'- aUCGUCGGG---UCGuCGGG-AUGA-----UCGUC- -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.