miRNA display CGI


Results 1 - 20 of 34 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
8212 3' -54.4 NC_001978.2 + 34391 1.12 0.000544
Target:  5'- gGGGUGCCUACUCACGUGAGUAGGCAGg -3'
miRNA:   3'- -CCCACGGAUGAGUGCACUCAUCCGUC- -5'
8212 3' -54.4 NC_001978.2 + 3455 0.67 0.627629
Target:  5'- cGGGUGCUcgccuaucucgUAUgCGCGUGAGUccaucGGGCu- -3'
miRNA:   3'- -CCCACGG-----------AUGaGUGCACUCA-----UCCGuc -5'
8212 3' -54.4 NC_001978.2 + 23479 0.69 0.505551
Target:  5'- cGGGUGCCcgaaGCUCuuCGaUGAGcggaAGGCAGc -3'
miRNA:   3'- -CCCACGGa---UGAGu-GC-ACUCa---UCCGUC- -5'
8212 3' -54.4 NC_001978.2 + 27514 0.7 0.452319
Target:  5'- ----aCCUACUCACGUGAGUagcuuggGGGCGc -3'
miRNA:   3'- cccacGGAUGAGUGCACUCA-------UCCGUc -5'
8212 3' -54.4 NC_001978.2 + 29517 0.76 0.196571
Target:  5'- ----aCCUACUCACGUGAGUAGGUu- -3'
miRNA:   3'- cccacGGAUGAGUGCACUCAUCCGuc -5'
8212 3' -54.4 NC_001978.2 + 19179 0.76 0.180921
Target:  5'- ---aGCCUACUCACGUGAGUagcuuggagcguGGGCuAGg -3'
miRNA:   3'- cccaCGGAUGAGUGCACUCA------------UCCG-UC- -5'
8212 3' -54.4 NC_001978.2 + 24319 0.77 0.177927
Target:  5'- cGGG-GCUugucgucguucagcgUACUCACGUGAGUAGGUugAGa -3'
miRNA:   3'- -CCCaCGG---------------AUGAGUGCACUCAUCCG--UC- -5'
8212 3' -54.4 NC_001978.2 + 29709 0.79 0.128884
Target:  5'- --aUGCCUACUCACGUGAGUAGuCAc -3'
miRNA:   3'- cccACGGAUGAGUGCACUCAUCcGUc -5'
8212 3' -54.4 NC_001978.2 + 2845 0.79 0.125236
Target:  5'- ----aCCUACUCACGUGAGUAGGUAa -3'
miRNA:   3'- cccacGGAUGAGUGCACUCAUCCGUc -5'
8212 3' -54.4 NC_001978.2 + 6080 0.79 0.121683
Target:  5'- cGGGcGCUcagcgUACUCACGUGAGUAGGUu- -3'
miRNA:   3'- -CCCaCGG-----AUGAGUGCACUCAUCCGuc -5'
8212 3' -54.4 NC_001978.2 + 1219 0.95 0.008365
Target:  5'- --aUGCCUACUCACGUGAGUAGGCAGc -3'
miRNA:   3'- cccACGGAUGAGUGCACUCAUCCGUC- -5'
8212 3' -54.4 NC_001978.2 + 40988 0.91 0.015897
Target:  5'- ---aGCCUACUCACGUGAGUAGGUAGg -3'
miRNA:   3'- cccaCGGAUGAGUGCACUCAUCCGUC- -5'
8212 3' -54.4 NC_001978.2 + 34734 0.85 0.044574
Target:  5'- uGGGaagccccuaCCUACUCACGUGAGUAGGUAGg -3'
miRNA:   3'- -CCCac-------GGAUGAGUGCACUCAUCCGUC- -5'
8212 3' -54.4 NC_001978.2 + 19751 0.84 0.053363
Target:  5'- ---aGCCUACUCACGUGAGUAGuGUAGa -3'
miRNA:   3'- cccaCGGAUGAGUGCACUCAUC-CGUC- -5'
8212 3' -54.4 NC_001978.2 + 16991 0.82 0.078541
Target:  5'- ----aCCUACUCACGUGAGUAGGUAGc -3'
miRNA:   3'- cccacGGAUGAGUGCACUCAUCCGUC- -5'
8212 3' -54.4 NC_001978.2 + 34777 0.8 0.102268
Target:  5'- -cGUGuucaaCCUACUCACGUGAGUAGGCu- -3'
miRNA:   3'- ccCAC-----GGAUGAGUGCACUCAUCCGuc -5'
8212 3' -54.4 NC_001978.2 + 11069 0.79 0.118225
Target:  5'- cGGUuccuaCCUACUCACGUGAGUAGGUu- -3'
miRNA:   3'- cCCAc----GGAUGAGUGCACUCAUCCGuc -5'
8212 3' -54.4 NC_001978.2 + 1283 0.92 0.015419
Target:  5'- --cUGCCUACUCACGUGAGUAGGCAu -3'
miRNA:   3'- cccACGGAUGAGUGCACUCAUCCGUc -5'
8212 3' -54.4 NC_001978.2 + 24398 0.68 0.582516
Target:  5'- ----aCCUACUCACGUGAGUAcGCuGa -3'
miRNA:   3'- cccacGGAUGAGUGCACUCAUcCGuC- -5'
8212 3' -54.4 NC_001978.2 + 32580 0.68 0.527159
Target:  5'- cGGGgcgcucaGCgUACUCACGUGAcUAGGUu- -3'
miRNA:   3'- -CCCa------CGgAUGAGUGCACUcAUCCGuc -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.