miRNA display CGI


Results 1 - 20 of 71 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
26990 3' -55.5 NC_005809.1 + 2222 0.68 0.455126
Target:  5'- gGGUaGCACCACGCgCAGcAGGCGGCg- -3'
miRNA:   3'- -UCAcCGUGGUGUG-GUUcUUCGUCGgu -5'
26990 3' -55.5 NC_005809.1 + 2846 0.7 0.325221
Target:  5'- cAGcGGCGCCAgCACCAGcGAGgGGCCu -3'
miRNA:   3'- -UCaCCGUGGU-GUGGUUcUUCgUCGGu -5'
26990 3' -55.5 NC_005809.1 + 4429 0.7 0.350608
Target:  5'- ---cGUGCCGCGCCAgggGGAAGCcGCCAg -3'
miRNA:   3'- ucacCGUGGUGUGGU---UCUUCGuCGGU- -5'
26990 3' -55.5 NC_005809.1 + 4822 0.66 0.595797
Target:  5'- aGGUcGGgGCCgGCGCCGucgucgaauucacGGAAaGCGGCCAg -3'
miRNA:   3'- -UCA-CCgUGG-UGUGGU-------------UCUU-CGUCGGU- -5'
26990 3' -55.5 NC_005809.1 + 6369 0.66 0.596932
Target:  5'- cGG-GGCGCUggguuACACCAGGucGGCcGCCGc -3'
miRNA:   3'- -UCaCCGUGG-----UGUGGUUCu-UCGuCGGU- -5'
26990 3' -55.5 NC_005809.1 + 6898 0.69 0.395963
Target:  5'- -cUGGCAUCGCAUCAucaGGAAauaggcauuGCGGCCGa -3'
miRNA:   3'- ucACCGUGGUGUGGU---UCUU---------CGUCGGU- -5'
26990 3' -55.5 NC_005809.1 + 8278 0.66 0.584462
Target:  5'- --cGGCuuccaggGCCACgcuGCCGGGGcaguGCAGCCAg -3'
miRNA:   3'- ucaCCG-------UGGUG---UGGUUCUu---CGUCGGU- -5'
26990 3' -55.5 NC_005809.1 + 8696 0.66 0.574296
Target:  5'- aGGUGuGCGCCGCGC--AGAuuGCuGCCGa -3'
miRNA:   3'- -UCAC-CGUGGUGUGguUCUu-CGuCGGU- -5'
26990 3' -55.5 NC_005809.1 + 9253 0.69 0.415134
Target:  5'- cAGUu-CACCAUACCGcaGGAAGCGGUCGg -3'
miRNA:   3'- -UCAccGUGGUGUGGU--UCUUCGUCGGU- -5'
26990 3' -55.5 NC_005809.1 + 9447 0.68 0.434864
Target:  5'- uGGUcGCGuCCACGCCGAGGgccugauaGGCAGCgAa -3'
miRNA:   3'- -UCAcCGU-GGUGUGGUUCU--------UCGUCGgU- -5'
26990 3' -55.5 NC_005809.1 + 10307 0.67 0.529704
Target:  5'- cGG-GGUGCCACuucgccaguuucGCCAGGccGUAGCCGu -3'
miRNA:   3'- -UCaCCGUGGUG------------UGGUUCuuCGUCGGU- -5'
26990 3' -55.5 NC_005809.1 + 11389 0.66 0.551864
Target:  5'- cGGUGGCgACCugAugggCCAGGGucuugAGCAGCg- -3'
miRNA:   3'- -UCACCG-UGGugU----GGUUCU-----UCGUCGgu -5'
26990 3' -55.5 NC_005809.1 + 11484 0.69 0.415134
Target:  5'- --cGGC-CUGCACCGAGGugAGCAGCg- -3'
miRNA:   3'- ucaCCGuGGUGUGGUUCU--UCGUCGgu -5'
26990 3' -55.5 NC_005809.1 + 12544 0.69 0.405477
Target:  5'- cGUGGUguGggGCACCAAGGGcGCGGCCGu -3'
miRNA:   3'- uCACCG--UggUGUGGUUCUU-CGUCGGU- -5'
26990 3' -55.5 NC_005809.1 + 12703 0.72 0.27789
Target:  5'- gGGUGGUGCUAgACCcguucgcAGGAAGCGGCaCAa -3'
miRNA:   3'- -UCACCGUGGUgUGG-------UUCUUCGUCG-GU- -5'
26990 3' -55.5 NC_005809.1 + 12811 0.67 0.507879
Target:  5'- ---cGCGCaCGCGCCuGGcAGCAGCCGa -3'
miRNA:   3'- ucacCGUG-GUGUGGuUCuUCGUCGGU- -5'
26990 3' -55.5 NC_005809.1 + 12983 0.68 0.44493
Target:  5'- -cUGGCAaaccgCGCGCCuGGgcGCGGCCGa -3'
miRNA:   3'- ucACCGUg----GUGUGGuUCuuCGUCGGU- -5'
26990 3' -55.5 NC_005809.1 + 13188 0.67 0.497109
Target:  5'- -cUGGCcuACCGCGCCGAGuccgagggcugGGGCaaGGCCAc -3'
miRNA:   3'- ucACCG--UGGUGUGGUUC-----------UUCG--UCGGU- -5'
26990 3' -55.5 NC_005809.1 + 13718 0.7 0.350608
Target:  5'- cGUGGCGCgGCGCUggGAcAGCuucggcaaguccGGCCGc -3'
miRNA:   3'- uCACCGUGgUGUGGuuCU-UCG------------UCGGU- -5'
26990 3' -55.5 NC_005809.1 + 13898 0.73 0.224961
Target:  5'- cGUGGCgcGCCGCGCUGGcGAGGCcGCCGg -3'
miRNA:   3'- uCACCG--UGGUGUGGUU-CUUCGuCGGU- -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.