miRNA display CGI


Results 1 - 20 of 23 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
23492 5' -57.3 NC_005259.1 + 48547 0.71 0.359369
Target:  5'- gUCGCCGGUcuUGUUGUACgcgCGCUGCg -3'
miRNA:   3'- gAGCGGCCAcuACAGCGUG---GUGACGa -5'
23492 5' -57.3 NC_005259.1 + 35046 0.71 0.366913
Target:  5'- --aGCCGGaUGAUGUCGCcggacacGCCGCccuUGCUg -3'
miRNA:   3'- gagCGGCC-ACUACAGCG-------UGGUG---ACGA- -5'
23492 5' -57.3 NC_005259.1 + 36895 0.71 0.367757
Target:  5'- -aCGCCGGUGAg--CGCcCCACUGaCg -3'
miRNA:   3'- gaGCGGCCACUacaGCGuGGUGAC-Ga -5'
23492 5' -57.3 NC_005259.1 + 60931 0.71 0.384933
Target:  5'- gCUCgGCCuuGGUGAUcGUCuGCACCACaUGCg -3'
miRNA:   3'- -GAG-CGG--CCACUA-CAG-CGUGGUG-ACGa -5'
23492 5' -57.3 NC_005259.1 + 30770 0.7 0.439531
Target:  5'- -aCGCCGGUG-----GCACCGCUGCc -3'
miRNA:   3'- gaGCGGCCACuacagCGUGGUGACGa -5'
23492 5' -57.3 NC_005259.1 + 61192 0.69 0.498282
Target:  5'- cCUCGCCGGUc-UGcUUGCACCACaucGCa -3'
miRNA:   3'- -GAGCGGCCAcuAC-AGCGUGGUGa--CGa -5'
23492 5' -57.3 NC_005259.1 + 60505 0.68 0.508421
Target:  5'- -gCGCCGGUGuUGUCGUagugcGCCAUgGCc -3'
miRNA:   3'- gaGCGGCCACuACAGCG-----UGGUGaCGa -5'
23492 5' -57.3 NC_005259.1 + 58723 0.68 0.52895
Target:  5'- aUCGCCGGgGGUGUCGUuggCACcgGCa -3'
miRNA:   3'- gAGCGGCCaCUACAGCGug-GUGa-CGa -5'
23492 5' -57.3 NC_005259.1 + 40046 0.68 0.538288
Target:  5'- gUCGCCGGUGAUcgggucgGUCGCGaugacCCAUggGCc -3'
miRNA:   3'- gAGCGGCCACUA-------CAGCGU-----GGUGa-CGa -5'
23492 5' -57.3 NC_005259.1 + 45491 0.67 0.570851
Target:  5'- -cCGCUGGUGGccuugGUCGCugugGCCACcGCg -3'
miRNA:   3'- gaGCGGCCACUa----CAGCG----UGGUGaCGa -5'
23492 5' -57.3 NC_005259.1 + 56552 0.67 0.570851
Target:  5'- gCUCGUCGGUcucggguucGGUGaUCGuCGCgGCUGCg -3'
miRNA:   3'- -GAGCGGCCA---------CUAC-AGC-GUGgUGACGa -5'
23492 5' -57.3 NC_005259.1 + 7248 0.67 0.581463
Target:  5'- -gCGCCGGUGucgagUGCGCCaagaaACUGCUc -3'
miRNA:   3'- gaGCGGCCACuaca-GCGUGG-----UGACGA- -5'
23492 5' -57.3 NC_005259.1 + 18748 0.67 0.581463
Target:  5'- gUCGUCGGUGGUGcUCGaCAUgGcCUGCc -3'
miRNA:   3'- gAGCGGCCACUAC-AGC-GUGgU-GACGa -5'
23492 5' -57.3 NC_005259.1 + 3188 0.67 0.581463
Target:  5'- gUCGUCGGUGcg--CGCACCACgaUGUg -3'
miRNA:   3'- gAGCGGCCACuacaGCGUGGUG--ACGa -5'
23492 5' -57.3 NC_005259.1 + 27947 0.67 0.601729
Target:  5'- gCUCGCCGGUGAacggaucUGUCaGCgugGCCAaUGUUc -3'
miRNA:   3'- -GAGCGGCCACU-------ACAG-CG---UGGUgACGA- -5'
23492 5' -57.3 NC_005259.1 + 32136 0.67 0.613507
Target:  5'- cCUUGgCGGUGAUGUCGgGCUuauAgaGCUu -3'
miRNA:   3'- -GAGCgGCCACUACAGCgUGG---UgaCGA- -5'
23492 5' -57.3 NC_005259.1 + 55726 0.67 0.617795
Target:  5'- cCUCGCCcuuguuggcaagcuuGGUGGUGUCGagACCG-UGCg -3'
miRNA:   3'- -GAGCGG---------------CCACUACAGCg-UGGUgACGa -5'
23492 5' -57.3 NC_005259.1 + 56025 0.66 0.63496
Target:  5'- cCUCGCCGGgcggGAcuuccUCGgGCgGCUGCg -3'
miRNA:   3'- -GAGCGGCCa---CUac---AGCgUGgUGACGa -5'
23492 5' -57.3 NC_005259.1 + 27584 0.66 0.63496
Target:  5'- -aUGCCGuacuUGUCGCACCACcaUGCg -3'
miRNA:   3'- gaGCGGCcacuACAGCGUGGUG--ACGa -5'
23492 5' -57.3 NC_005259.1 + 47789 0.66 0.671367
Target:  5'- aUCGCgcagcgguccgaCGGUGA-GUCGCgagaccucgcgggccACCGCUGCc -3'
miRNA:   3'- gAGCG------------GCCACUaCAGCG---------------UGGUGACGa -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.