miRNA display CGI


Results 1 - 20 of 46 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
12388 3' -56.2 NC_003324.1 + 77 0.76 0.175354
Target:  5'- cUUAuGCGCCGGCCGUCgAGCuGACCa- -3'
miRNA:   3'- aAGUuUGCGGCCGGUAG-UCG-CUGGcu -5'
12388 3' -56.2 NC_003324.1 + 1947 0.67 0.610455
Target:  5'- -aCGGACcCCGGcCCGUgAGCGAgCGGa -3'
miRNA:   3'- aaGUUUGcGGCC-GGUAgUCGCUgGCU- -5'
12388 3' -56.2 NC_003324.1 + 2510 0.69 0.442266
Target:  5'- -aCAAGcCGCCGG-CGUCGGCGGCUu- -3'
miRNA:   3'- aaGUUU-GCGGCCgGUAGUCGCUGGcu -5'
12388 3' -56.2 NC_003324.1 + 4472 0.69 0.462008
Target:  5'- aUUCAGGCGCCGGaugcggcucaCAUCcucuacggcGGCGACgCGAc -3'
miRNA:   3'- -AAGUUUGCGGCCg---------GUAG---------UCGCUG-GCU- -5'
12388 3' -56.2 NC_003324.1 + 4834 0.66 0.62807
Target:  5'- uUUCAGugacuaugGCGCCGGCaacaacguuGCGGCCGGu -3'
miRNA:   3'- -AAGUU--------UGCGGCCGguagu----CGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 5208 0.66 0.621461
Target:  5'- cUCuauCGCUGGCg--CGGCGACCGc -3'
miRNA:   3'- aAGuuuGCGGCCGguaGUCGCUGGCu -5'
12388 3' -56.2 NC_003324.1 + 6600 0.71 0.368392
Target:  5'- -gCAGAC-CCuGCCGuggcUCAGCGGCCGAg -3'
miRNA:   3'- aaGUUUGcGGcCGGU----AGUCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 8871 0.7 0.413572
Target:  5'- -gCGAACuGUaCGGCCAUCAGCGGCa-- -3'
miRNA:   3'- aaGUUUG-CG-GCCGGUAGUCGCUGgcu -5'
12388 3' -56.2 NC_003324.1 + 10291 0.67 0.588509
Target:  5'- -aCuuGCGCCGGCaugaUAUUGGCG-CCGAu -3'
miRNA:   3'- aaGuuUGCGGCCG----GUAGUCGCuGGCU- -5'
12388 3' -56.2 NC_003324.1 + 11143 0.66 0.654496
Target:  5'- gUCcgcuuCGCCGGUCu--GGCGGCCGGc -3'
miRNA:   3'- aAGuuu--GCGGCCGGuagUCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 17195 0.68 0.513268
Target:  5'- gUCGGACG-CGGCUuUCGGCGuucuugagcGCCGAg -3'
miRNA:   3'- aAGUUUGCgGCCGGuAGUCGC---------UGGCU- -5'
12388 3' -56.2 NC_003324.1 + 18092 0.71 0.351293
Target:  5'- ---uGGCGCCGGCCaAUCgguauccgaAGCGAUCGAc -3'
miRNA:   3'- aaguUUGCGGCCGG-UAG---------UCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 18982 0.7 0.404265
Target:  5'- gUUCGAGCGCgCaGCCGaacGCGACCGAg -3'
miRNA:   3'- -AAGUUUGCG-GcCGGUaguCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 21086 0.66 0.643491
Target:  5'- uUUC-GGCG-CGGCCAUCauugcGGCGAuCCGAc -3'
miRNA:   3'- -AAGuUUGCgGCCGGUAG-----UCGCU-GGCU- -5'
12388 3' -56.2 NC_003324.1 + 21388 0.66 0.66548
Target:  5'- aUCGAGgauauCGCCGGCgAggcggCGaacGCGGCCGAg -3'
miRNA:   3'- aAGUUU-----GCGGCCGgUa----GU---CGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 21847 0.67 0.599468
Target:  5'- gUUCGcGCaGCCgGGCCuccUCGGCGGCCu- -3'
miRNA:   3'- -AAGUuUG-CGG-CCGGu--AGUCGCUGGcu -5'
12388 3' -56.2 NC_003324.1 + 21945 0.69 0.472051
Target:  5'- --uGGAUGCgGGCCucucGUCGGCGGCgCGAu -3'
miRNA:   3'- aagUUUGCGgCCGG----UAGUCGCUG-GCU- -5'
12388 3' -56.2 NC_003324.1 + 23838 0.68 0.509077
Target:  5'- gUCGGACGuuucguaguuuCCGGCCGgcgucuuguagagCAGCGgACCGAg -3'
miRNA:   3'- aAGUUUGC-----------GGCCGGUa------------GUCGC-UGGCU- -5'
12388 3' -56.2 NC_003324.1 + 25698 0.74 0.254139
Target:  5'- aUCAgcAGCcguGCCGGCgCAgCAGCGGCCGAc -3'
miRNA:   3'- aAGU--UUG---CGGCCG-GUaGUCGCUGGCU- -5'
12388 3' -56.2 NC_003324.1 + 26876 0.68 0.545122
Target:  5'- -cCAAGCGCaCGGCCgcGUCuGCcaaGCCGAa -3'
miRNA:   3'- aaGUUUGCG-GCCGG--UAGuCGc--UGGCU- -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.