miRNA display CGI


Results 1 - 20 of 27 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
23191 5' -52.2 NC_005259.1 + 8767 0.66 0.887737
Target:  5'- uGAGCUCGCuggcacGCUUGCGuGCGGguGCa- -3'
miRNA:   3'- -CUCGAGCG------UGGACGCuUGUUguUGcu -5'
23191 5' -52.2 NC_005259.1 + 65910 0.66 0.880166
Target:  5'- aGAGC-CGCGCa-GCGAugAGCgGGCGGc -3'
miRNA:   3'- -CUCGaGCGUGgaCGCUugUUG-UUGCU- -5'
23191 5' -52.2 NC_005259.1 + 66379 0.66 0.887737
Target:  5'- uGGCacuacCGCACCUcGcCGAACAAgGGCGGu -3'
miRNA:   3'- cUCGa----GCGUGGA-C-GCUUGUUgUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 2041 0.66 0.902074
Target:  5'- cGAGCUguuucuugCGCGCCUcGCGGugAAUcGCGu -3'
miRNA:   3'- -CUCGA--------GCGUGGA-CGCUugUUGuUGCu -5'
23191 5' -52.2 NC_005259.1 + 22423 0.66 0.902074
Target:  5'- cGGCgucgacCGCGCCgcccgagGCGAGCAGCGcgucguugGCGGu -3'
miRNA:   3'- cUCGa-----GCGUGGa------CGCUUGUUGU--------UGCU- -5'
23191 5' -52.2 NC_005259.1 + 65431 0.66 0.895042
Target:  5'- cGAGCUCGcCGCCUacaaGGACAuCGACa- -3'
miRNA:   3'- -CUCGAGC-GUGGAcg--CUUGUuGUUGcu -5'
23191 5' -52.2 NC_005259.1 + 16466 0.66 0.894324
Target:  5'- uGGGC-CGCGCCccaagauuggaugUGCGAGCccGACAugGu -3'
miRNA:   3'- -CUCGaGCGUGG-------------ACGCUUG--UUGUugCu -5'
23191 5' -52.2 NC_005259.1 + 24770 0.66 0.895042
Target:  5'- cGAGCUCGCccgccgcgccGCCcGCGcGCGAgaaguCGGCGAc -3'
miRNA:   3'- -CUCGAGCG----------UGGaCGCuUGUU-----GUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 67811 0.67 0.872332
Target:  5'- uGAGC-CGCucACCUGCuacGACuGCAACGGc -3'
miRNA:   3'- -CUCGaGCG--UGGACGc--UUGuUGUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 46115 0.67 0.864243
Target:  5'- -cGgUCGCGCgCUGCGucuguACGACGGCa- -3'
miRNA:   3'- cuCgAGCGUG-GACGCu----UGUUGUUGcu -5'
23191 5' -52.2 NC_005259.1 + 29257 0.67 0.847329
Target:  5'- uGGGC-CGgAUgUGCGAcagcgGCAGCAGCGGc -3'
miRNA:   3'- -CUCGaGCgUGgACGCU-----UGUUGUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 58564 0.67 0.847329
Target:  5'- cGAGCUCGaCAUCgaGUGGcuCGACGGCGGu -3'
miRNA:   3'- -CUCGAGC-GUGGa-CGCUu-GUUGUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 14117 0.67 0.83852
Target:  5'- cAGCagGcCACC-GCGAACggUAGCGAa -3'
miRNA:   3'- cUCGagC-GUGGaCGCUUGuuGUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 42497 0.67 0.83852
Target:  5'- cGAGCUCGcCGCCcgGCGAGaagagcGCggUGAg -3'
miRNA:   3'- -CUCGAGC-GUGGa-CGCUUgu----UGuuGCU- -5'
23191 5' -52.2 NC_005259.1 + 43016 0.68 0.801159
Target:  5'- cGGGCa-GCGCCgagGUGAACAacggaaguaGCAGCGGg -3'
miRNA:   3'- -CUCGagCGUGGa--CGCUUGU---------UGUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 37831 0.68 0.791338
Target:  5'- cGAGCUCGC-CCU-UGAGCcaguCGGCGAg -3'
miRNA:   3'- -CUCGAGCGuGGAcGCUUGuu--GUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 25099 0.68 0.791338
Target:  5'- -uGCcCGCGCCgGCugaucgauGGGCAGCGACGAc -3'
miRNA:   3'- cuCGaGCGUGGaCG--------CUUGUUGUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 60804 0.69 0.760901
Target:  5'- -cGUUuaCGCGCCcgaUGuCGGGCAACAGCGAg -3'
miRNA:   3'- cuCGA--GCGUGG---AC-GCUUGUUGUUGCU- -5'
23191 5' -52.2 NC_005259.1 + 27242 0.69 0.729246
Target:  5'- cGAcCUCGCAgCCUugcGCGAACAACAcCGGc -3'
miRNA:   3'- -CUcGAGCGU-GGA---CGCUUGUUGUuGCU- -5'
23191 5' -52.2 NC_005259.1 + 51211 0.7 0.708714
Target:  5'- cGAGCgugCGCACCgcgauagcgaggccgGUGAGCu-CAGCGAg -3'
miRNA:   3'- -CUCGa--GCGUGGa--------------CGCUUGuuGUUGCU- -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.