miRNA display CGI


Results 1 - 20 of 26 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
13453 5' -50.1 NC_003409.1 + 29752 0.66 0.983458
Target:  5'- gGGGGuguGGGAUGGgGGUgUGGg -3'
miRNA:   3'- gCCUCu--CCUUACCaCCGgACCa -5'
13453 5' -50.1 NC_003409.1 + 29882 0.66 0.983458
Target:  5'- gGGGGuguGGGAUGGgGGUgUGGg -3'
miRNA:   3'- gCCUCu--CCUUACCaCCGgACCa -5'
13453 5' -50.1 NC_003409.1 + 29856 0.66 0.983458
Target:  5'- gGGGGuguGGGAUGGgGGUgUGGg -3'
miRNA:   3'- gCCUCu--CCUUACCaCCGgACCa -5'
13453 5' -50.1 NC_003409.1 + 29830 0.66 0.983458
Target:  5'- gGGGGuguGGGAUGGgGGUgUGGg -3'
miRNA:   3'- gCCUCu--CCUUACCaCCGgACCa -5'
13453 5' -50.1 NC_003409.1 + 29804 0.66 0.983458
Target:  5'- gGGGGuguGGGAUGGgGGUgUGGg -3'
miRNA:   3'- gCCUCu--CCUUACCaCCGgACCa -5'
13453 5' -50.1 NC_003409.1 + 29778 0.66 0.983458
Target:  5'- gGGGGuguGGGAUGGgGGUgUGGg -3'
miRNA:   3'- gCCUCu--CCUUACCaCCGgACCa -5'
13453 5' -50.1 NC_003409.1 + 61622 0.66 0.983458
Target:  5'- gCGGAGAGGg--GGUGGUgcgagUUGGc -3'
miRNA:   3'- -GCCUCUCCuuaCCACCG-----GACCa -5'
13453 5' -50.1 NC_003409.1 + 87028 0.66 0.981315
Target:  5'- uGGAGcggcGGGAGUGuGUGuGCCcgGGUa -3'
miRNA:   3'- gCCUC----UCCUUAC-CAC-CGGa-CCA- -5'
13453 5' -50.1 NC_003409.1 + 129137 0.67 0.97364
Target:  5'- gCGGGGAGGAGggGGUGGg--GGa -3'
miRNA:   3'- -GCCUCUCCUUa-CCACCggaCCa -5'
13453 5' -50.1 NC_003409.1 + 50506 0.67 0.970635
Target:  5'- aGGAGAGGAggcgaacaGUGcGUGGCUcuuguucuUGGg -3'
miRNA:   3'- gCCUCUCCU--------UAC-CACCGG--------ACCa -5'
13453 5' -50.1 NC_003409.1 + 78769 0.67 0.970635
Target:  5'- aCGGAcGGGucuucggugGGUGGCUUGGg -3'
miRNA:   3'- -GCCUcUCCuua------CCACCGGACCa -5'
13453 5' -50.1 NC_003409.1 + 49161 0.67 0.963902
Target:  5'- aCGG-GAGGcuUGGUGGCCa--- -3'
miRNA:   3'- -GCCuCUCCuuACCACCGGacca -5'
13453 5' -50.1 NC_003409.1 + 133308 0.68 0.96016
Target:  5'- aGGGcguugccAGGAGUGGUGGCgaUGGUg -3'
miRNA:   3'- gCCUc------UCCUUACCACCGg-ACCA- -5'
13453 5' -50.1 NC_003409.1 + 108814 0.68 0.950561
Target:  5'- uGGAGuGuGGAUGGUgauauggucuccugGGCCUGGc -3'
miRNA:   3'- gCCUCuC-CUUACCA--------------CCGGACCa -5'
13453 5' -50.1 NC_003409.1 + 23974 0.69 0.937462
Target:  5'- gCGGGGGGGGggcuaGUGaGUcacgGGCCUGGa -3'
miRNA:   3'- -GCCUCUCCU-----UAC-CA----CCGGACCa -5'
13453 5' -50.1 NC_003409.1 + 76376 0.69 0.920524
Target:  5'- uCGGucAGuucuGUGGUGGCCUGGa -3'
miRNA:   3'- -GCCucUCcu--UACCACCGGACCa -5'
13453 5' -50.1 NC_003409.1 + 108528 0.7 0.907832
Target:  5'- aGGGGGGGAAggccgcGGUGGaauCCUGGc -3'
miRNA:   3'- gCCUCUCCUUa-----CCACC---GGACCa -5'
13453 5' -50.1 NC_003409.1 + 66649 0.7 0.901071
Target:  5'- gGGuGGGGGAUGGUGGgaggCUGGc -3'
miRNA:   3'- gCCuCUCCUUACCACCg---GACCa -5'
13453 5' -50.1 NC_003409.1 + 117736 0.7 0.894036
Target:  5'- uCGGuGGGGGAgGGUGcCCUGGUu -3'
miRNA:   3'- -GCCuCUCCUUaCCACcGGACCA- -5'
13453 5' -50.1 NC_003409.1 + 48971 0.72 0.790564
Target:  5'- --cGGAGGAAUGGUGGacggcuccguCCUGGUg -3'
miRNA:   3'- gccUCUCCUUACCACC----------GGACCA- -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.