miRNA display CGI


Results 1 - 20 of 30 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
12479 5' -53.3 NC_003324.1 + 50594 0.66 0.800545
Target:  5'- cUGGcUGCGUGCCAgcgcuguuUCAaAAGCugGGugAUCu -3'
miRNA:   3'- -ACC-ACGCGCGGU--------AGU-UUCG--UCugUAG- -5'
12479 5' -53.3 NC_003324.1 + 51238 0.66 0.759618
Target:  5'- aUGGUcCGCGCCcuuAUCGAAggacgcaagacGCAGACAc- -3'
miRNA:   3'- -ACCAcGCGCGG---UAGUUU-----------CGUCUGUag -5'
12479 5' -53.3 NC_003324.1 + 55503 0.66 0.810341
Target:  5'- cGGUccacaCGaCGCCAcuguUCAAGGCGGGCuUCg -3'
miRNA:   3'- aCCAc----GC-GCGGU----AGUUUCGUCUGuAG- -5'
12479 5' -53.3 NC_003324.1 + 5552 0.67 0.749011
Target:  5'- cGGuUGC-CGCCGcaaccuUCGccGCGGGCGUCa -3'
miRNA:   3'- aCC-ACGcGCGGU------AGUuuCGUCUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 17805 0.67 0.749011
Target:  5'- cUGGUaGCGUGCC-UCAcGGCGcGCAUUc -3'
miRNA:   3'- -ACCA-CGCGCGGuAGUuUCGUcUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 29708 0.67 0.738278
Target:  5'- cGGcGuUGCGCCA--GAAGCAGGCAg- -3'
miRNA:   3'- aCCaC-GCGCGGUagUUUCGUCUGUag -5'
12479 5' -53.3 NC_003324.1 + 44419 0.67 0.738278
Target:  5'- aGGgcgcagcGCGCGCCGUgGcuGCAGAggcUAUCg -3'
miRNA:   3'- aCCa------CGCGCGGUAgUuuCGUCU---GUAG- -5'
12479 5' -53.3 NC_003324.1 + 3212 0.67 0.716486
Target:  5'- aGGgGCGCGUCgAUCAcgccuuugAGGCAGGCGc- -3'
miRNA:   3'- aCCaCGCGCGG-UAGU--------UUCGUCUGUag -5'
12479 5' -53.3 NC_003324.1 + 17886 0.68 0.653904
Target:  5'- --aUGCGCGCCGU-GAGGCAcgcuaccagaucgccGGCAUCa -3'
miRNA:   3'- accACGCGCGGUAgUUUCGU---------------CUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 35695 0.68 0.649384
Target:  5'- aUGcUGCGCGCagcaGAAGCcGACAUCg -3'
miRNA:   3'- -ACcACGCGCGguagUUUCGuCUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 15655 0.68 0.694341
Target:  5'- cGGccccgGCGCGCUcgaugacgcgAUCAAGGCGGGCc-- -3'
miRNA:   3'- aCCa----CGCGCGG----------UAGUUUCGUCUGuag -5'
12479 5' -53.3 NC_003324.1 + 23324 0.68 0.687644
Target:  5'- aGGUGuCGUuguagauccugacgaGCuCGUCGcGGCGGGCGUCa -3'
miRNA:   3'- aCCAC-GCG---------------CG-GUAGUuUCGUCUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 11850 0.68 0.683167
Target:  5'- aGGUGcCGCGCCcaacCGGGGCAuuGACAg- -3'
miRNA:   3'- aCCAC-GCGCGGua--GUUUCGU--CUGUag -5'
12479 5' -53.3 NC_003324.1 + 50374 0.69 0.626759
Target:  5'- aUGGUGaaCGCcuucuuGCCGUCGAccGGCGGcGCAUCa -3'
miRNA:   3'- -ACCAC--GCG------CGGUAGUU--UCGUC-UGUAG- -5'
12479 5' -53.3 NC_003324.1 + 8269 0.69 0.626759
Target:  5'- aGGcGCGCGCCG-CcGGGCAGugAg- -3'
miRNA:   3'- aCCaCGCGCGGUaGuUUCGUCugUag -5'
12479 5' -53.3 NC_003324.1 + 38699 0.69 0.615449
Target:  5'- cGGUagaGgGCGUCAUCcucgccAAGCAGAUGUCa -3'
miRNA:   3'- aCCA---CgCGCGGUAGu-----UUCGUCUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 54314 0.69 0.638074
Target:  5'- cGGUGcCGCGCCuUCGcuuuGAGCAGcCGcUCu -3'
miRNA:   3'- aCCAC-GCGCGGuAGU----UUCGUCuGU-AG- -5'
12479 5' -53.3 NC_003324.1 + 48091 0.69 0.625628
Target:  5'- aGGauCGCGCCGacguggcugcugcUCGAAGCGGACuUCa -3'
miRNA:   3'- aCCacGCGCGGU-------------AGUUUCGUCUGuAG- -5'
12479 5' -53.3 NC_003324.1 + 14707 0.69 0.638074
Target:  5'- aGGUGCGaugcaggGCUAUCGAGGCauGGGC-UCg -3'
miRNA:   3'- aCCACGCg------CGGUAGUUUCG--UCUGuAG- -5'
12479 5' -53.3 NC_003324.1 + 5485 0.7 0.537241
Target:  5'- aGGUGCggGCGCCAUCuuccGAGCcGAaAUCg -3'
miRNA:   3'- aCCACG--CGCGGUAGu---UUCGuCUgUAG- -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.