miRNA display CGI


Results 1 - 20 of 20 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
1356 3' -57.4 NC_001335.1 + 12006 0.66 0.607728
Target:  5'- cCGAGGAGaACAGCccguuccgccucGGUCggauugUGGcCCGUCc -3'
miRNA:   3'- aGCUCCUC-UGUCG------------CCGGa-----ACU-GGCAG- -5'
1356 3' -57.4 NC_001335.1 + 30653 0.66 0.607728
Target:  5'- cCGuGGucccGGUAGgGGCCUUG-CCGUCa -3'
miRNA:   3'- aGCuCCu---CUGUCgCCGGAACuGGCAG- -5'
1356 3' -57.4 NC_001335.1 + 4164 0.66 0.59686
Target:  5'- aUGGuGGGcCAGaCGGCCUucgGGCCGUCc -3'
miRNA:   3'- aGCUcCUCuGUC-GCCGGAa--CUGGCAG- -5'
1356 3' -57.4 NC_001335.1 + 11353 0.66 0.586022
Target:  5'- cUUGAucccGACAGCGGCCUUGAUgGcCu -3'
miRNA:   3'- -AGCUccu-CUGUCGCCGGAACUGgCaG- -5'
1356 3' -57.4 NC_001335.1 + 6357 0.66 0.582778
Target:  5'- -gGAGGAcGACaugcacgaguacgaGGUGGCCaUUGGCCGa- -3'
miRNA:   3'- agCUCCU-CUG--------------UCGCCGG-AACUGGCag -5'
1356 3' -57.4 NC_001335.1 + 51944 0.66 0.564468
Target:  5'- aCG-GGGGAUAGCGGggc-GACUGUCa -3'
miRNA:   3'- aGCuCCUCUGUCGCCggaaCUGGCAG- -5'
1356 3' -57.4 NC_001335.1 + 25782 0.67 0.543128
Target:  5'- cCG-GGAGuuGCAGCGGUCggaacccucGCCGUCg -3'
miRNA:   3'- aGCuCCUC--UGUCGCCGGaac------UGGCAG- -5'
1356 3' -57.4 NC_001335.1 + 12533 0.67 0.511644
Target:  5'- aCGAGGAGuaacCcGUGGCCUacgcGACCGcCg -3'
miRNA:   3'- aGCUCCUCu---GuCGCCGGAa---CUGGCaG- -5'
1356 3' -57.4 NC_001335.1 + 1430 0.67 0.501315
Target:  5'- -gGAGGAGACuGGCaGGCUUUGGacCCGg- -3'
miRNA:   3'- agCUCCUCUG-UCG-CCGGAACU--GGCag -5'
1356 3' -57.4 NC_001335.1 + 9856 0.67 0.491079
Target:  5'- cCGuGGGGcuCGGgGaGCCUggGACCGUCg -3'
miRNA:   3'- aGCuCCUCu-GUCgC-CGGAa-CUGGCAG- -5'
1356 3' -57.4 NC_001335.1 + 34416 0.68 0.470906
Target:  5'- uUCGGuGGAGuggcCAGCGGCCcgcuGCCGUUc -3'
miRNA:   3'- -AGCU-CCUCu---GUCGCCGGaac-UGGCAG- -5'
1356 3' -57.4 NC_001335.1 + 32828 0.68 0.460979
Target:  5'- aUCGAGucGcgcACAGCaGCCgaGGCCGUCg -3'
miRNA:   3'- -AGCUCcuC---UGUCGcCGGaaCUGGCAG- -5'
1356 3' -57.4 NC_001335.1 + 39410 0.68 0.460978
Target:  5'- uUCGAGGAauggugaaGugAGCGGCCaaguucuggUGGCCuUCu -3'
miRNA:   3'- -AGCUCCU--------CugUCGCCGGa--------ACUGGcAG- -5'
1356 3' -57.4 NC_001335.1 + 9674 0.68 0.441462
Target:  5'- uUCGuGGcuGCGuCGGCCUUGGCCG-Cg -3'
miRNA:   3'- -AGCuCCucUGUcGCCGGAACUGGCaG- -5'
1356 3' -57.4 NC_001335.1 + 14945 0.68 0.441462
Target:  5'- cCGGGGuAGACAGcCGGg--UGGCUGUCa -3'
miRNA:   3'- aGCUCC-UCUGUC-GCCggaACUGGCAG- -5'
1356 3' -57.4 NC_001335.1 + 23714 0.69 0.41961
Target:  5'- -gGAGGAGGCGGCggggguaaaggcauGGCCcUGGCUGa- -3'
miRNA:   3'- agCUCCUCUGUCG--------------CCGGaACUGGCag -5'
1356 3' -57.4 NC_001335.1 + 35680 0.69 0.385872
Target:  5'- uUCGGGGAGAUcccgucgguguAGCGGCUccUGAUCGcCu -3'
miRNA:   3'- -AGCUCCUCUG-----------UCGCCGGa-ACUGGCaG- -5'
1356 3' -57.4 NC_001335.1 + 16376 0.74 0.196702
Target:  5'- gUCGGGGcagcgucgAGGCGGCuGCCUUGauGCCGUCc -3'
miRNA:   3'- -AGCUCC--------UCUGUCGcCGGAAC--UGGCAG- -5'
1356 3' -57.4 NC_001335.1 + 4831 0.77 0.123958
Target:  5'- cCGAGGcGGGcCAGCGGCCUUG-CCGaUCa -3'
miRNA:   3'- aGCUCC-UCU-GUCGCCGGAACuGGC-AG- -5'
1356 3' -57.4 NC_001335.1 + 16409 1.09 0.000534
Target:  5'- gUCGAGGAGACAGCGGCCUUGACCGUCu -3'
miRNA:   3'- -AGCUCCUCUGUCGCCGGAACUGGCAG- -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.