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 + 48461 1.11 0.000972
Target:  5'- aUGGUGCGCGCCAUCAAAGCAGACAUCg -3'
miRNA:   3'- -ACCACGCGCGGUAGUUUCGUCUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 55023 0.8 0.14414
Target:  5'- aGGUGuCGCGCCGggcaggCAAGGCGGACGg- -3'
miRNA:   3'- aCCAC-GCGCGGUa-----GUUUCGUCUGUag -5'
12479 5' -53.3 NC_003324.1 + 23278 0.77 0.212919
Target:  5'- aGGcucagaUGCGCGCCGUCAuAGCugcgcaGGACAUCc -3'
miRNA:   3'- aCC------ACGCGCGGUAGUuUCG------UCUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 30440 0.75 0.308084
Target:  5'- aGG-GCGaCGCCAUCAAGGCucuGACGg- -3'
miRNA:   3'- aCCaCGC-GCGGUAGUUUCGu--CUGUag -5'
12479 5' -53.3 NC_003324.1 + 51437 0.73 0.38385
Target:  5'- gGGUGCGCGagaacgcugcuguCCGUCAccaGAGUuGGCAUCa -3'
miRNA:   3'- aCCACGCGC-------------GGUAGU---UUCGuCUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 51878 0.72 0.419758
Target:  5'- gGGUGgucgccuacaccuuCGCGUCAUC-AAGCAGaACAUCg -3'
miRNA:   3'- aCCAC--------------GCGCGGUAGuUUCGUC-UGUAG- -5'
12479 5' -53.3 NC_003324.1 + 6507 0.72 0.451525
Target:  5'- cUGGUGCGUGCCcuucacgagcuggAUCGcuGCAGACu-- -3'
miRNA:   3'- -ACCACGCGCGG-------------UAGUuuCGUCUGuag -5'
12479 5' -53.3 NC_003324.1 + 582 0.71 0.483512
Target:  5'- cUGG-GCGCGaacugcguCCGUuggacCGAGGCGGACAUCa -3'
miRNA:   3'- -ACCaCGCGC--------GGUA-----GUUUCGUCUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 43268 0.71 0.494063
Target:  5'- gGGUGCGCcuuGCCuucGUCGAGGCuGGC-UCg -3'
miRNA:   3'- aCCACGCG---CGG---UAGUUUCGuCUGuAG- -5'
12479 5' -53.3 NC_003324.1 + 11498 0.71 0.515469
Target:  5'- aGGUGCGCGUuagggucgauugCGUCGAAGguGuugagaacacuuACAUCa -3'
miRNA:   3'- aCCACGCGCG------------GUAGUUUCguC------------UGUAG- -5'
12479 5' -53.3 NC_003324.1 + 5485 0.7 0.537241
Target:  5'- aGGUGCggGCGCCAUCuuccGAGCcGAaAUCg -3'
miRNA:   3'- aCCACG--CGCGGUAGu---UUCGuCUgUAG- -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 + 48091 0.69 0.625628
Target:  5'- aGGauCGCGCCGacguggcugcugcUCGAAGCGGACuUCa -3'
miRNA:   3'- aCCacGCGCGGU-------------AGUUUCGUCUGuAG- -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 + 50374 0.69 0.626759
Target:  5'- aUGGUGaaCGCcuucuuGCCGUCGAccGGCGGcGCAUCa -3'
miRNA:   3'- -ACCAC--GCG------CGGUAGUU--UCGUC-UGUAG- -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 + 14707 0.69 0.638074
Target:  5'- aGGUGCGaugcaggGCUAUCGAGGCauGGGC-UCg -3'
miRNA:   3'- aCCACGCg------CGGUAGUUUCG--UCUGuAG- -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 + 17886 0.68 0.653904
Target:  5'- --aUGCGCGCCGU-GAGGCAcgcuaccagaucgccGGCAUCa -3'
miRNA:   3'- accACGCGCGGUAgUUUCGU---------------CUGUAG- -5'
12479 5' -53.3 NC_003324.1 + 11850 0.68 0.683167
Target:  5'- aGGUGcCGCGCCcaacCGGGGCAuuGACAg- -3'
miRNA:   3'- aCCAC-GCGCGGua--GUUUCGU--CUGUag -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.