miRNA display CGI


Results 1 - 20 of 55 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
11115 3' -56.4 NC_002794.1 + 99592 0.76 0.411078
Target:  5'- aGGGCGCGG-CGgcGGcGCGCGCUCGCGc -3'
miRNA:   3'- aCCUGCGCUaGU--CCaCGUGCGAGUGC- -5'
11115 3' -56.4 NC_002794.1 + 78453 0.75 0.48602
Target:  5'- cGGACGCGcucgcggucucggucAUCAGGcGCACGCUCu-- -3'
miRNA:   3'- aCCUGCGC---------------UAGUCCaCGUGCGAGugc -5'
11115 3' -56.4 NC_002794.1 + 36353 0.75 0.51052
Target:  5'- cGGcguGCGCGGccacCGGGUGCGCGCcCGCGg -3'
miRNA:   3'- aCC---UGCGCUa---GUCCACGUGCGaGUGC- -5'
11115 3' -56.4 NC_002794.1 + 38769 0.74 0.520081
Target:  5'- cUGGACGUucucGAUCAuGUGCGCGCUCcugACGu -3'
miRNA:   3'- -ACCUGCG----CUAGUcCACGUGCGAG---UGC- -5'
11115 3' -56.4 NC_002794.1 + 113150 0.73 0.618624
Target:  5'- cGGGCGCG-UCAGcGUGUAgCGCgCGCGg -3'
miRNA:   3'- aCCUGCGCuAGUC-CACGU-GCGaGUGC- -5'
11115 3' -56.4 NC_002794.1 + 57487 0.72 0.628641
Target:  5'- --cGCGCGAcCAGGUGCGCGCgccCGCc -3'
miRNA:   3'- accUGCGCUaGUCCACGUGCGa--GUGc -5'
11115 3' -56.4 NC_002794.1 + 57123 0.72 0.63866
Target:  5'- aUGGAgCGCGGcCuGGUGCACaacuuccuGCUCACGc -3'
miRNA:   3'- -ACCU-GCGCUaGuCCACGUG--------CGAGUGC- -5'
11115 3' -56.4 NC_002794.1 + 33653 0.72 0.668658
Target:  5'- cGGGCGCGcUgAGcGUGCacucGCGCUCGCu -3'
miRNA:   3'- aCCUGCGCuAgUC-CACG----UGCGAGUGc -5'
11115 3' -56.4 NC_002794.1 + 101714 0.7 0.737267
Target:  5'- aGGACGUGuUCGuGGUGCACGUggGCc -3'
miRNA:   3'- aCCUGCGCuAGU-CCACGUGCGagUGc -5'
11115 3' -56.4 NC_002794.1 + 181064 0.7 0.756209
Target:  5'- cGGAgaaCGCGGguccgggCAGGgGCACGCUCuCGa -3'
miRNA:   3'- aCCU---GCGCUa------GUCCaCGUGCGAGuGC- -5'
11115 3' -56.4 NC_002794.1 + 105063 0.7 0.782911
Target:  5'- cUGGACGgGGUCgccguccAGGUGCGCGaaacaGCGg -3'
miRNA:   3'- -ACCUGCgCUAG-------UCCACGUGCgag--UGC- -5'
11115 3' -56.4 NC_002794.1 + 873 0.7 0.783814
Target:  5'- cGcGAgGCGGUCGGcGUGCGCGCgggC-CGg -3'
miRNA:   3'- aC-CUgCGCUAGUC-CACGUGCGa--GuGC- -5'
11115 3' -56.4 NC_002794.1 + 90394 0.7 0.783814
Target:  5'- cGucCGCGAUCGGGcUGCACGUgagCAuCGg -3'
miRNA:   3'- aCcuGCGCUAGUCC-ACGUGCGa--GU-GC- -5'
11115 3' -56.4 NC_002794.1 + 146839 0.7 0.783814
Target:  5'- uUGG-CGCGAgagUC-GGUGCGCGUcguUCGCGu -3'
miRNA:   3'- -ACCuGCGCU---AGuCCACGUGCG---AGUGC- -5'
11115 3' -56.4 NC_002794.1 + 105136 0.69 0.792765
Target:  5'- aGGAUGCGGUCGcGGaGCACGUa-GCGg -3'
miRNA:   3'- aCCUGCGCUAGU-CCaCGUGCGagUGC- -5'
11115 3' -56.4 NC_002794.1 + 107926 0.69 0.810244
Target:  5'- uUGGACGCGcGUCgaAGaGcgGCugGCUCGCu -3'
miRNA:   3'- -ACCUGCGC-UAG--UC-Ca-CGugCGAGUGc -5'
11115 3' -56.4 NC_002794.1 + 11269 0.69 0.827103
Target:  5'- gGcGACGCGGUCAccuGGUgGCGCGUcCGCa -3'
miRNA:   3'- aC-CUGCGCUAGU---CCA-CGUGCGaGUGc -5'
11115 3' -56.4 NC_002794.1 + 609 0.69 0.827103
Target:  5'- cGGGUGCGGUCAGGcgGCccggugugGCGUUCGCc -3'
miRNA:   3'- aCCUGCGCUAGUCCa-CG--------UGCGAGUGc -5'
11115 3' -56.4 NC_002794.1 + 149462 0.68 0.835282
Target:  5'- aGGGgGCGGUCgaggagcgagggGGGgcgGCAUGCUCGgGg -3'
miRNA:   3'- aCCUgCGCUAG------------UCCa--CGUGCGAGUgC- -5'
11115 3' -56.4 NC_002794.1 + 104563 0.68 0.846433
Target:  5'- cUGGAUGCGGuccaccagcuUCAGGUuguugcggcacgaguGCaggauGCGCUCGCGc -3'
miRNA:   3'- -ACCUGCGCU----------AGUCCA---------------CG-----UGCGAGUGC- -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.