miRNA display CGI


Results 1 - 20 of 25 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
12424 3' -55.5 NC_003324.1 + 48423 0.66 0.710829
Target:  5'- cGCUUCaCCGccucaucgaagaGCGCCG-CGCCGAGAa- -3'
miRNA:   3'- -UGAAGaGGC------------UGUGGCgGCGGUUCUag -5'
12424 3' -55.5 NC_003324.1 + 32574 0.66 0.710829
Target:  5'- gACaUCgUCGACACCGUgauCGCCGAGGc- -3'
miRNA:   3'- -UGaAGaGGCUGUGGCG---GCGGUUCUag -5'
12424 3' -55.5 NC_003324.1 + 43708 0.66 0.700055
Target:  5'- --gUCgUCCGGUACCGCCugcuGCCAaucgGGAUCa -3'
miRNA:   3'- ugaAG-AGGCUGUGGCGG----CGGU----UCUAG- -5'
12424 3' -55.5 NC_003324.1 + 35538 0.66 0.678322
Target:  5'- cGCUcg-CCGACAUCGCCGaCGuGAUCc -3'
miRNA:   3'- -UGAagaGGCUGUGGCGGCgGUuCUAG- -5'
12424 3' -55.5 NC_003324.1 + 20259 0.66 0.677229
Target:  5'- cGCcUCUCUGACcgagGCUGCCGgCAgcguucuGGAUCg -3'
miRNA:   3'- -UGaAGAGGCUG----UGGCGGCgGU-------UCUAG- -5'
12424 3' -55.5 NC_003324.1 + 49648 0.67 0.667383
Target:  5'- aACUUCgaCGACGCUGCCGauauCAAGggCg -3'
miRNA:   3'- -UGAAGagGCUGUGGCGGCg---GUUCuaG- -5'
12424 3' -55.5 NC_003324.1 + 13335 0.67 0.656412
Target:  5'- -gUUCUUCGACGCuUGCgGCCAuGAUg -3'
miRNA:   3'- ugAAGAGGCUGUG-GCGgCGGUuCUAg -5'
12424 3' -55.5 NC_003324.1 + 36732 0.67 0.656412
Target:  5'- cGCaUCUCCGgcgGCACCuUCGCCGGGGa- -3'
miRNA:   3'- -UGaAGAGGC---UGUGGcGGCGGUUCUag -5'
12424 3' -55.5 NC_003324.1 + 45298 0.67 0.656412
Target:  5'- uGCUUCcagUUCGA-GCCGgCGCUggGAUCg -3'
miRNA:   3'- -UGAAG---AGGCUgUGGCgGCGGuuCUAG- -5'
12424 3' -55.5 NC_003324.1 + 14223 0.67 0.623404
Target:  5'- cGCUUCUCgGAgACCGCaaaCGCCucGcgCg -3'
miRNA:   3'- -UGAAGAGgCUgUGGCG---GCGGuuCuaG- -5'
12424 3' -55.5 NC_003324.1 + 54412 0.67 0.612404
Target:  5'- aACUcC-CCGGgACCGCUGCCGggccucgacuGGGUCa -3'
miRNA:   3'- -UGAaGaGGCUgUGGCGGCGGU----------UCUAG- -5'
12424 3' -55.5 NC_003324.1 + 43702 0.68 0.594843
Target:  5'- gUUUCUCCGGCuugcuguCCGagcagucgagcgcgaCCGCCAAGuAUCa -3'
miRNA:   3'- uGAAGAGGCUGu------GGC---------------GGCGGUUC-UAG- -5'
12424 3' -55.5 NC_003324.1 + 38071 0.68 0.579541
Target:  5'- aACcgCUCCGGCAUgGCCGCCu----- -3'
miRNA:   3'- -UGaaGAGGCUGUGgCGGCGGuucuag -5'
12424 3' -55.5 NC_003324.1 + 20747 0.68 0.557837
Target:  5'- gGCUUC-CaaGCAUCGCCGCCu-GGUCg -3'
miRNA:   3'- -UGAAGaGgcUGUGGCGGCGGuuCUAG- -5'
12424 3' -55.5 NC_003324.1 + 31726 0.69 0.504737
Target:  5'- aACUUCUCCGGCG-CGCCGa-AGGAa- -3'
miRNA:   3'- -UGAAGAGGCUGUgGCGGCggUUCUag -5'
12424 3' -55.5 NC_003324.1 + 31644 0.69 0.501616
Target:  5'- cACUUcCUUCGGCgcgccggagaaguuGCCGCCGuuccauCCGAGAUCg -3'
miRNA:   3'- -UGAA-GAGGCUG--------------UGGCGGC------GGUUCUAG- -5'
12424 3' -55.5 NC_003324.1 + 45901 0.7 0.473936
Target:  5'- cGCUccUCaUUCGGCGCCGCCGCUucGGAa- -3'
miRNA:   3'- -UGA--AG-AGGCUGUGGCGGCGGu-UCUag -5'
12424 3' -55.5 NC_003324.1 + 33654 0.71 0.406036
Target:  5'- uGCUUCUCCccuucuacgcucGauacgccuGCGCUGCCGCCAAGGcaUCa -3'
miRNA:   3'- -UGAAGAGG------------C--------UGUGGCGGCGGUUCU--AG- -5'
12424 3' -55.5 NC_003324.1 + 18883 0.71 0.394112
Target:  5'- cCUUCgCCGcgccauggacccgcGCAUCGuuGCCGAGAUCg -3'
miRNA:   3'- uGAAGaGGC--------------UGUGGCggCGGUUCUAG- -5'
12424 3' -55.5 NC_003324.1 + 44003 0.71 0.387786
Target:  5'- ---cCUCCucgGCUGCCGCCGGGAUCa -3'
miRNA:   3'- ugaaGAGGcugUGGCGGCGGUUCUAG- -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.