miRNA display CGI


Results 1 - 20 of 129 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
18438 3' -54 NC_004681.1 + 579 0.72 0.577026
Target:  5'- cCCCaGGCGAGuuccUUCAGGgcGCCAUCGACg -3'
miRNA:   3'- -GGGcCUGCUU----GAGUUC--CGGUAGCUGg -5'
18438 3' -54 NC_004681.1 + 839 0.67 0.847632
Target:  5'- uCCCGGACGAucccCUUGAGGaCCuggauUCGugguuCCc -3'
miRNA:   3'- -GGGCCUGCUu---GAGUUCC-GGu----AGCu----GG- -5'
18438 3' -54 NC_004681.1 + 858 0.69 0.765327
Target:  5'- cCCCGucAUGGGCggCAGGGCCGgguaGGCCg -3'
miRNA:   3'- -GGGCc-UGCUUGa-GUUCCGGUag--CUGG- -5'
18438 3' -54 NC_004681.1 + 965 0.66 0.900194
Target:  5'- aCCGGcgcuACGAGCcCcGGGCauuCAUCGACa -3'
miRNA:   3'- gGGCC----UGCUUGaGuUCCG---GUAGCUGg -5'
18438 3' -54 NC_004681.1 + 1013 0.67 0.829732
Target:  5'- --aGGAUGAGCUCGAGgauggaggcggacGCCAgggCGGCUu -3'
miRNA:   3'- gggCCUGCUUGAGUUC-------------CGGUa--GCUGG- -5'
18438 3' -54 NC_004681.1 + 1081 0.75 0.406202
Target:  5'- cCCUGGcagcGCGAGCgccUCAAGGCCAUCuacgagcgccucaaGGCCa -3'
miRNA:   3'- -GGGCC----UGCUUG---AGUUCCGGUAG--------------CUGG- -5'
18438 3' -54 NC_004681.1 + 1178 0.66 0.871564
Target:  5'- cCCCGacCGAAucacCUCAAGGCCcUCGAa- -3'
miRNA:   3'- -GGGCcuGCUU----GAGUUCCGGuAGCUgg -5'
18438 3' -54 NC_004681.1 + 1299 0.73 0.51477
Target:  5'- uCUgGGACGAGCU---GGCCGaCGACCu -3'
miRNA:   3'- -GGgCCUGCUUGAguuCCGGUaGCUGG- -5'
18438 3' -54 NC_004681.1 + 1750 0.66 0.900194
Target:  5'- -gUGGACGAuACcCAgguaguuccccAGGCCAUCGcCCu -3'
miRNA:   3'- ggGCCUGCU-UGaGU-----------UCCGGUAGCuGG- -5'
18438 3' -54 NC_004681.1 + 1989 0.72 0.593949
Target:  5'- gUCCGGGCGAuugGCUCcagcacccauccGGCCG-CGGCCa -3'
miRNA:   3'- -GGGCCUGCU---UGAGuu----------CCGGUaGCUGG- -5'
18438 3' -54 NC_004681.1 + 2095 0.68 0.794274
Target:  5'- gCCGGAUGggUgcuGGGCCAaUCaGCCc -3'
miRNA:   3'- gGGCCUGCuuGaguUCCGGU-AGcUGG- -5'
18438 3' -54 NC_004681.1 + 2970 0.69 0.735225
Target:  5'- cCCCGaGAU--AUUCGcGGCCAUCGAgCa -3'
miRNA:   3'- -GGGC-CUGcuUGAGUuCCGGUAGCUgG- -5'
18438 3' -54 NC_004681.1 + 3039 0.66 0.900194
Target:  5'- gCUGG-UGAACUCGgcgcgcguggcGGuGCCGUCGcCCa -3'
miRNA:   3'- gGGCCuGCUUGAGU-----------UC-CGGUAGCuGG- -5'
18438 3' -54 NC_004681.1 + 3694 0.69 0.735225
Target:  5'- uCCUGu-CGAAgcgcCUCAAGGUCGUUGACUa -3'
miRNA:   3'- -GGGCcuGCUU----GAGUUCCGGUAGCUGG- -5'
18438 3' -54 NC_004681.1 + 3751 0.66 0.900194
Target:  5'- aUCUGGGCGGcgACgUCgAAGGCgAgggCGGCCu -3'
miRNA:   3'- -GGGCCUGCU--UG-AG-UUCCGgUa--GCUGG- -5'
18438 3' -54 NC_004681.1 + 3873 0.68 0.794274
Target:  5'- aCCGGuAUGGGCUCAGGuGCgCG-CGugCa -3'
miRNA:   3'- gGGCC-UGCUUGAGUUC-CG-GUaGCugG- -5'
18438 3' -54 NC_004681.1 + 4553 0.72 0.598193
Target:  5'- cUCCggGGACGAACUCcuuGGCgAagCGACCg -3'
miRNA:   3'- -GGG--CCUGCUUGAGuu-CCGgUa-GCUGG- -5'
18438 3' -54 NC_004681.1 + 5705 0.69 0.755408
Target:  5'- gCCUGGAaguaGuACUCGuagcGGCCAguUCGACUg -3'
miRNA:   3'- -GGGCCUg---CuUGAGUu---CCGGU--AGCUGG- -5'
18438 3' -54 NC_004681.1 + 7259 0.67 0.830605
Target:  5'- uCCUGGGCGcggGugUCGAGcGCCuUgGACUg -3'
miRNA:   3'- -GGGCCUGC---UugAGUUC-CGGuAgCUGG- -5'
18438 3' -54 NC_004681.1 + 7630 0.7 0.680084
Target:  5'- uCCCGGACuuggagucagucagGAACgUCGcgcgcacccAGGCCcaggcAUCGACCg -3'
miRNA:   3'- -GGGCCUG--------------CUUG-AGU---------UCCGG-----UAGCUGG- -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.