miRNA display CGI


Results 1 - 20 of 34 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
21254 3' -54.2 NC_004778.3 + 25652 0.74 0.511018
Target:  5'- aGCUUGC-GCG----GGGGCCGGCGGCg -3'
miRNA:   3'- -UGAGCGaCGUcuaaUCUUGGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 121307 0.66 0.939382
Target:  5'- aACcCGCUGCAGAUggcuugcagcuGcGCCGuGuCGGCg -3'
miRNA:   3'- -UGaGCGACGUCUAau---------CuUGGC-C-GCCG- -5'
21254 3' -54.2 NC_004778.3 + 41825 0.66 0.913183
Target:  5'- cGCaCGCUGuCGGAggcguuggAGAACUGGCucgcGGCg -3'
miRNA:   3'- -UGaGCGAC-GUCUaa------UCUUGGCCG----CCG- -5'
21254 3' -54.2 NC_004778.3 + 63491 0.67 0.893882
Target:  5'- --gCGCggGCGGAUUcGGGCucaugcugCGGCGGCg -3'
miRNA:   3'- ugaGCGa-CGUCUAAuCUUG--------GCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 76604 0.67 0.891831
Target:  5'- uUUCGCUGCuGGcggAGAgaaugguugucacaGCgGGCGGCc -3'
miRNA:   3'- uGAGCGACGuCUaa-UCU--------------UGgCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 124356 0.68 0.848903
Target:  5'- gAC-CGCga-AGAcc-GGACCGGCGGCg -3'
miRNA:   3'- -UGaGCGacgUCUaauCUUGGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 83258 0.69 0.796508
Target:  5'- uGCgUUGUUGCAGAcgcgcGGAACggcgCGGCGGCu -3'
miRNA:   3'- -UG-AGCGACGUCUaa---UCUUG----GCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 34543 0.71 0.697742
Target:  5'- --gUGCgGCGGcgUGGGacugaacuuaACCGGCGGCa -3'
miRNA:   3'- ugaGCGaCGUCuaAUCU----------UGGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 43400 0.71 0.697742
Target:  5'- uUUUGCgGCAGGcgUGcGAGCCGGCGGa -3'
miRNA:   3'- uGAGCGaCGUCUa-AU-CUUGGCCGCCg -5'
21254 3' -54.2 NC_004778.3 + 27743 0.71 0.687382
Target:  5'- -aUCGCgcGUAGAcUGGAACCGGUugcaGGCg -3'
miRNA:   3'- ugAGCGa-CGUCUaAUCUUGGCCG----CCG- -5'
21254 3' -54.2 NC_004778.3 + 81838 0.74 0.521052
Target:  5'- aGC-CGCcauugGCGGAUcGGGAgCGGCGGCg -3'
miRNA:   3'- -UGaGCGa----CGUCUAaUCUUgGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 38719 0.74 0.539301
Target:  5'- aACUCGCcgcaguuuugcgGCAGGUUGGAGCCGcCGcGCa -3'
miRNA:   3'- -UGAGCGa-----------CGUCUAAUCUUGGCcGC-CG- -5'
21254 3' -54.2 NC_004778.3 + 113923 0.73 0.582644
Target:  5'- cCUCGCUcGCGGAgagcGAGCgCGGCGGa -3'
miRNA:   3'- uGAGCGA-CGUCUaau-CUUG-GCCGCCg -5'
21254 3' -54.2 NC_004778.3 + 10252 0.73 0.593081
Target:  5'- uGCgcagCGC-GCcGAUUgcgcgcGGGACCGGCGGCg -3'
miRNA:   3'- -UGa---GCGaCGuCUAA------UCUUGGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 33425 0.72 0.635049
Target:  5'- --aCGCgGCauAGAaUGGAugCGGCGGCg -3'
miRNA:   3'- ugaGCGaCG--UCUaAUCUugGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 36546 0.72 0.645557
Target:  5'- gACgCGCcGCAu-UUGGAACCGGCGcGCg -3'
miRNA:   3'- -UGaGCGaCGUcuAAUCUUGGCCGC-CG- -5'
21254 3' -54.2 NC_004778.3 + 1897 0.72 0.656053
Target:  5'- aGC-CGCUGCAGGUUuGAuuauaACCGcCGGCg -3'
miRNA:   3'- -UGaGCGACGUCUAAuCU-----UGGCcGCCG- -5'
21254 3' -54.2 NC_004778.3 + 97573 1.11 0.002358
Target:  5'- cACUCGCUGCAGAUUAGAACCGGCGGCu -3'
miRNA:   3'- -UGAGCGACGUCUAAUCUUGGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 117782 0.66 0.924804
Target:  5'- gGCUCGCcGgGGAUgcucGugUCGGCGGUu -3'
miRNA:   3'- -UGAGCGaCgUCUAau--CuuGGCCGCCG- -5'
21254 3' -54.2 NC_004778.3 + 15586 0.66 0.919119
Target:  5'- gGCggCGCUGC-GAgcAGugcuuugauAUCGGCGGCg -3'
miRNA:   3'- -UGa-GCGACGuCUaaUCu--------UGGCCGCCG- -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.