miRNA display CGI


Results 1 - 20 of 23 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
10796 3' -56.2 NC_002794.1 + 141324 0.66 0.932932
Target:  5'- -cGGCGUcGGCUcgGUGGCGAGCGa---- -3'
miRNA:   3'- auCUGCA-CCGG--CACCGCUUGCagacu -5'
10796 3' -56.2 NC_002794.1 + 121493 0.66 0.932932
Target:  5'- cGGACGcGGCCuccgccggGGCGAcgACGUCcGAa -3'
miRNA:   3'- aUCUGCaCCGGca------CCGCU--UGCAGaCU- -5'
10796 3' -56.2 NC_002794.1 + 118257 0.66 0.932932
Target:  5'- cUGGAgGUcGGCCGgGGCGGcggcgccgGCGUCgggGAc -3'
miRNA:   3'- -AUCUgCA-CCGGCaCCGCU--------UGCAGa--CU- -5'
10796 3' -56.2 NC_002794.1 + 119441 0.66 0.932932
Target:  5'- -cGACGgcggcGGCgGUGGCG-GCGUCg-- -3'
miRNA:   3'- auCUGCa----CCGgCACCGCuUGCAGacu -5'
10796 3' -56.2 NC_002794.1 + 147745 0.66 0.927857
Target:  5'- -uGACGUGGCCGcUGGaGAGuuuUCUGAu -3'
miRNA:   3'- auCUGCACCGGC-ACCgCUUgc-AGACU- -5'
10796 3' -56.2 NC_002794.1 + 102413 0.66 0.916444
Target:  5'- -cGACGcGGCCGUGGcCGAggccgccacgcgcAUGUCcGAg -3'
miRNA:   3'- auCUGCaCCGGCACC-GCU-------------UGCAGaCU- -5'
10796 3' -56.2 NC_002794.1 + 113873 0.67 0.911241
Target:  5'- cAGGCGcgcucGGCCGcGGCGcGCGUCg-- -3'
miRNA:   3'- aUCUGCa----CCGGCaCCGCuUGCAGacu -5'
10796 3' -56.2 NC_002794.1 + 23102 0.67 0.911241
Target:  5'- cGGACGUGGCgucccCGuUGGCcuGCGUgUGAg -3'
miRNA:   3'- aUCUGCACCG-----GC-ACCGcuUGCAgACU- -5'
10796 3' -56.2 NC_002794.1 + 35506 0.67 0.911241
Target:  5'- aGGugGUGGCCGccGUGcccAGCGUCUa- -3'
miRNA:   3'- aUCugCACCGGCacCGC---UUGCAGAcu -5'
10796 3' -56.2 NC_002794.1 + 143102 0.67 0.90767
Target:  5'- -cGGCGUguuccagccccgcucGGCCGUGGCGcAgGUCUcGGg -3'
miRNA:   3'- auCUGCA---------------CCGGCACCGCuUgCAGA-CU- -5'
10796 3' -56.2 NC_002794.1 + 104486 0.67 0.905244
Target:  5'- cGGGCGgccacggcGGCCGggucgGGCGAgaACGggCUGAg -3'
miRNA:   3'- aUCUGCa-------CCGGCa----CCGCU--UGCa-GACU- -5'
10796 3' -56.2 NC_002794.1 + 109536 0.67 0.879013
Target:  5'- -cGGCGUcgGGCCG-GGCGGACcgGUCUa- -3'
miRNA:   3'- auCUGCA--CCGGCaCCGCUUG--CAGAcu -5'
10796 3' -56.2 NC_002794.1 + 43621 0.68 0.849386
Target:  5'- aGGACGUGGCCGccaggagcUGGUGGaacACG-CUGc -3'
miRNA:   3'- aUCUGCACCGGC--------ACCGCU---UGCaGACu -5'
10796 3' -56.2 NC_002794.1 + 94487 0.68 0.841488
Target:  5'- cGGACGcggccgcgGGCCGUGGCGGggaugaauACGUUgcaGAg -3'
miRNA:   3'- aUCUGCa-------CCGGCACCGCU--------UGCAGa--CU- -5'
10796 3' -56.2 NC_002794.1 + 107623 0.69 0.833405
Target:  5'- gGGACgGUGGCgGUGacgaagaggagcGCGAACGUCgcgagGAg -3'
miRNA:   3'- aUCUG-CACCGgCAC------------CGCUUGCAGa----CU- -5'
10796 3' -56.2 NC_002794.1 + 86936 0.69 0.825145
Target:  5'- cAGGCGgGGCgGgauccGGCGAGCGUCg-- -3'
miRNA:   3'- aUCUGCaCCGgCa----CCGCUUGCAGacu -5'
10796 3' -56.2 NC_002794.1 + 66861 0.69 0.816716
Target:  5'- -cGGCGaGGCCGcGGCGuGCGgCUGAg -3'
miRNA:   3'- auCUGCaCCGGCaCCGCuUGCaGACU- -5'
10796 3' -56.2 NC_002794.1 + 175730 0.69 0.816716
Target:  5'- aGGAgCGUGGCCGUGagaGCGA--GUCUGu -3'
miRNA:   3'- aUCU-GCACCGGCAC---CGCUugCAGACu -5'
10796 3' -56.2 NC_002794.1 + 143411 0.7 0.74412
Target:  5'- -cGGCGcgGGCCG-GGCGAAgGUCcgGAa -3'
miRNA:   3'- auCUGCa-CCGGCaCCGCUUgCAGa-CU- -5'
10796 3' -56.2 NC_002794.1 + 14589 0.71 0.72485
Target:  5'- --aGCG-GGCCGUGGCGAGCG-Cg-- -3'
miRNA:   3'- aucUGCaCCGGCACCGCUUGCaGacu -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.