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
12115 3' -57.2 NC_003309.1 + 19017 0.66 0.593711
Target:  5'- gCGCCGUcGUCgAUCGCCGCAuacuUGCc--- -3'
miRNA:   3'- -GCGGCGcUAG-UAGCGGCGU----ACGucua -5'
12115 3' -57.2 NC_003309.1 + 22455 0.66 0.582776
Target:  5'- gCGCgGCGAUCGcaCGCUGCcgGCGucGAg -3'
miRNA:   3'- -GCGgCGCUAGUa-GCGGCGuaCGU--CUa -5'
12115 3' -57.2 NC_003309.1 + 43531 0.66 0.582776
Target:  5'- aCGCCgucgGCGGcCAUCGCgCGCAU-CAGGUc -3'
miRNA:   3'- -GCGG----CGCUaGUAGCG-GCGUAcGUCUA- -5'
12115 3' -57.2 NC_003309.1 + 4251 0.66 0.571882
Target:  5'- gGCUGCGAUCAgguaGCCGCccG-AGAa -3'
miRNA:   3'- gCGGCGCUAGUag--CGGCGuaCgUCUa -5'
12115 3' -57.2 NC_003309.1 + 44656 0.66 0.571882
Target:  5'- gCGUCGCGGuacugUCcUUGCCGCcgGaCAGAg -3'
miRNA:   3'- -GCGGCGCU-----AGuAGCGGCGuaC-GUCUa -5'
12115 3' -57.2 NC_003309.1 + 47606 0.66 0.571882
Target:  5'- uGCC-CGGUCGUCGCCGCGccguccgGCu--- -3'
miRNA:   3'- gCGGcGCUAGUAGCGGCGUa------CGucua -5'
12115 3' -57.2 NC_003309.1 + 38888 0.66 0.571882
Target:  5'- aGUCGCuuucgacaauGAUCuacUCGCCGCGUGCGc-- -3'
miRNA:   3'- gCGGCG----------CUAGu--AGCGGCGUACGUcua -5'
12115 3' -57.2 NC_003309.1 + 11459 0.66 0.561038
Target:  5'- uCGCaCGUaguUCGUCGCCGCcgucuguUGCGGAc -3'
miRNA:   3'- -GCG-GCGcu-AGUAGCGGCGu------ACGUCUa -5'
12115 3' -57.2 NC_003309.1 + 11760 0.69 0.418127
Target:  5'- gCGCCcgGCGAUCAgCcCCGCcAUGCGGAc -3'
miRNA:   3'- -GCGG--CGCUAGUaGcGGCG-UACGUCUa -5'
12115 3' -57.2 NC_003309.1 + 53263 0.69 0.408761
Target:  5'- cCGCuCGCGcgccGUCuUCGCCGCGUGaCAGu- -3'
miRNA:   3'- -GCG-GCGC----UAGuAGCGGCGUAC-GUCua -5'
12115 3' -57.2 NC_003309.1 + 16931 0.69 0.399528
Target:  5'- aCGUCGCGAUCG-CGCCGacagcgacgaGUGCGGc- -3'
miRNA:   3'- -GCGGCGCUAGUaGCGGCg---------UACGUCua -5'
12115 3' -57.2 NC_003309.1 + 19388 0.69 0.372642
Target:  5'- cCGCCGCGGUCAgcgacaCGaCCGaCGgcgGCGGAg -3'
miRNA:   3'- -GCGGCGCUAGUa-----GC-GGC-GUa--CGUCUa -5'
12115 3' -57.2 NC_003309.1 + 10898 0.72 0.2574
Target:  5'- cCGCCGCGGUCgcgGUCGCCGCGcGUu--- -3'
miRNA:   3'- -GCGGCGCUAG---UAGCGGCGUaCGucua -5'
12115 3' -57.2 NC_003309.1 + 168 0.73 0.232041
Target:  5'- cCGCCGCGAuuuUCcgCGCCGUcgGCuuGGGUu -3'
miRNA:   3'- -GCGGCGCU---AGuaGCGGCGuaCG--UCUA- -5'
12115 3' -57.2 NC_003309.1 + 17815 0.78 0.107923
Target:  5'- gCGUCgGCGAUCGUCGCCGUGUGCGc-- -3'
miRNA:   3'- -GCGG-CGCUAGUAGCGGCGUACGUcua -5'
12115 3' -57.2 NC_003309.1 + 10299 0.79 0.088457
Target:  5'- uCGCCGCcugCGUCGCCGCGacUGCGGAUu -3'
miRNA:   3'- -GCGGCGcuaGUAGCGGCGU--ACGUCUA- -5'
12115 3' -57.2 NC_003309.1 + 9180 1.05 0.001009
Target:  5'- cCGCCGCGAUCAUCGCCGCAUGCAGAUc -3'
miRNA:   3'- -GCGGCGCUAGUAGCGGCGUACGUCUA- -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.