miRNA display CGI


Results 1 - 12 of 12 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
13219 3' -58.7 NC_003401.1 + 32332 0.66 0.76454
Target:  5'- aGGGCGGugGUGCC-GGGCGGUgGc- -3'
miRNA:   3'- gCUCGCCcaUAUGGaCCCGCCGgUaa -5'
13219 3' -58.7 NC_003401.1 + 107390 0.66 0.745351
Target:  5'- cCGAGCGGGgcgGUccACCUGGaGUcguccgguucgGGCCcgUg -3'
miRNA:   3'- -GCUCGCCCa--UA--UGGACC-CG-----------CCGGuaA- -5'
13219 3' -58.7 NC_003401.1 + 127659 0.66 0.745351
Target:  5'- uGAuGCGGGUaAUACCUGcGGCGcuccCCAg- -3'
miRNA:   3'- gCU-CGCCCA-UAUGGAC-CCGCc---GGUaa -5'
13219 3' -58.7 NC_003401.1 + 21828 0.66 0.715845
Target:  5'- uGGGCGGGgccgACCacaGGcGCGGCCc-- -3'
miRNA:   3'- gCUCGCCCaua-UGGa--CC-CGCCGGuaa -5'
13219 3' -58.7 NC_003401.1 + 132561 0.66 0.715845
Target:  5'- gCGcGCGGcucccgAUGCC-GGGCGGCCGc- -3'
miRNA:   3'- -GCuCGCCca----UAUGGaCCCGCCGGUaa -5'
13219 3' -58.7 NC_003401.1 + 16177 0.67 0.705854
Target:  5'- ---aCGGGUucACCgGGGUGGCCAg- -3'
miRNA:   3'- gcucGCCCAuaUGGaCCCGCCGGUaa -5'
13219 3' -58.7 NC_003401.1 + 132597 0.67 0.705854
Target:  5'- gGAGCGGc---ACCcggGGGCGGCCc-- -3'
miRNA:   3'- gCUCGCCcauaUGGa--CCCGCCGGuaa -5'
13219 3' -58.7 NC_003401.1 + 127125 0.67 0.685695
Target:  5'- gCGaAGUGGGacc-CCUGGGCcGGCCGc- -3'
miRNA:   3'- -GC-UCGCCCauauGGACCCG-CCGGUaa -5'
13219 3' -58.7 NC_003401.1 + 74128 0.68 0.624425
Target:  5'- uGAGCGGGUGgguUUUGGGgagcgUGGCCAc- -3'
miRNA:   3'- gCUCGCCCAUau-GGACCC-----GCCGGUaa -5'
13219 3' -58.7 NC_003401.1 + 132525 0.69 0.583583
Target:  5'- gCGGcGCGGGgcgGCCggGGGCGGCgGc- -3'
miRNA:   3'- -GCU-CGCCCauaUGGa-CCCGCCGgUaa -5'
13219 3' -58.7 NC_003401.1 + 121924 0.73 0.353835
Target:  5'- gGAGCGGGgggcgcggGUGCggcggCUGGcGCGGCCGUg -3'
miRNA:   3'- gCUCGCCCa-------UAUG-----GACC-CGCCGGUAa -5'
13219 3' -58.7 NC_003401.1 + 57744 1.06 0.002078
Target:  5'- gCGAGCGGGUAUACCUGGGCGGCCAUUg -3'
miRNA:   3'- -GCUCGCCCAUAUGGACCCGCCGGUAA- -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.