miRNA display CGI


Results 1 - 20 of 35 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
17189 5' -60.5 NC_004333.2 + 3169 0.66 0.415412
Target:  5'- -uCGGCGCGCUGUCGaacgaGGcgaagaucgccGACGCUUa -3'
miRNA:   3'- uuGCCGCGCGGCAGCa----CC-----------UUGCGGAc -5'
17189 5' -60.5 NC_004333.2 + 6601 0.66 0.406275
Target:  5'- cACGGCGCGCCGcCc---AGCGCCg- -3'
miRNA:   3'- uUGCCGCGCGGCaGcaccUUGCGGac -5'
17189 5' -60.5 NC_004333.2 + 19932 0.66 0.406275
Target:  5'- cGACGaGCGCGCCGggCG-GcGAGcCGCCg- -3'
miRNA:   3'- -UUGC-CGCGCGGCa-GCaC-CUU-GCGGac -5'
17189 5' -60.5 NC_004333.2 + 13209 0.66 0.406275
Target:  5'- --aGGCGCGUCG-CGUGGAcuucggUGCCg- -3'
miRNA:   3'- uugCCGCGCGGCaGCACCUu-----GCGGac -5'
17189 5' -60.5 NC_004333.2 + 29335 0.66 0.397266
Target:  5'- aAGCGGCucGgGCCG-CGUaGGAGCGCagcaUGg -3'
miRNA:   3'- -UUGCCG--CgCGGCaGCA-CCUUGCGg---AC- -5'
17189 5' -60.5 NC_004333.2 + 12456 0.66 0.397266
Target:  5'- -cUGGCGCGCCGg-GcGGGGCGCg-- -3'
miRNA:   3'- uuGCCGCGCGGCagCaCCUUGCGgac -5'
17189 5' -60.5 NC_004333.2 + 46312 0.66 0.388386
Target:  5'- aGAauGCGCGCCacuuuGUCcUGGAugacuucgaGCGCCUGg -3'
miRNA:   3'- -UUgcCGCGCGG-----CAGcACCU---------UGCGGAC- -5'
17189 5' -60.5 NC_004333.2 + 2394 0.66 0.388386
Target:  5'- uGACGGCGCcgGCgGUCGccUGGu-CGCCg- -3'
miRNA:   3'- -UUGCCGCG--CGgCAGC--ACCuuGCGGac -5'
17189 5' -60.5 NC_004333.2 + 5425 0.66 0.379638
Target:  5'- cGCGGCaGCGUCGUCGgcaucUGcGAACGCg-- -3'
miRNA:   3'- uUGCCG-CGCGGCAGC-----AC-CUUGCGgac -5'
17189 5' -60.5 NC_004333.2 + 13846 0.66 0.379638
Target:  5'- cGACGG-GCGCCG-CGUcGAGCGCaUUGa -3'
miRNA:   3'- -UUGCCgCGCGGCaGCAcCUUGCG-GAC- -5'
17189 5' -60.5 NC_004333.2 + 3389 0.66 0.379638
Target:  5'- -cCGGCGuCGCCGUCGUcgcGGGA-GCUUc -3'
miRNA:   3'- uuGCCGC-GCGGCAGCA---CCUUgCGGAc -5'
17189 5' -60.5 NC_004333.2 + 38388 0.66 0.371022
Target:  5'- --gGGUGCGCCGgCGUG--ACGCCg- -3'
miRNA:   3'- uugCCGCGCGGCaGCACcuUGCGGac -5'
17189 5' -60.5 NC_004333.2 + 27218 0.67 0.354196
Target:  5'- cGCGGUacauCGCCGUCGUGaucgcAGCGUCUGc -3'
miRNA:   3'- uUGCCGc---GCGGCAGCACc----UUGCGGAC- -5'
17189 5' -60.5 NC_004333.2 + 25128 0.67 0.353369
Target:  5'- cGGCGGCGCGCaCGuUCGcGGccugcccGAUGCCUc -3'
miRNA:   3'- -UUGCCGCGCG-GC-AGCaCC-------UUGCGGAc -5'
17189 5' -60.5 NC_004333.2 + 19993 0.67 0.345986
Target:  5'- -cCGGCGCGCuCGUCGUcgaugaugcGGAcgGCGCg-- -3'
miRNA:   3'- uuGCCGCGCG-GCAGCA---------CCU--UGCGgac -5'
17189 5' -60.5 NC_004333.2 + 11890 0.67 0.345986
Target:  5'- --gGaGCGCGCCGUCGcgcuGAugGCCg- -3'
miRNA:   3'- uugC-CGCGCGGCAGCac--CUugCGGac -5'
17189 5' -60.5 NC_004333.2 + 9754 0.67 0.345986
Target:  5'- cGGauGCGCGcCCGUCGUcaacGAGCGCCa- -3'
miRNA:   3'- -UUgcCGCGC-GGCAGCAc---CUUGCGGac -5'
17189 5' -60.5 NC_004333.2 + 30827 0.67 0.329195
Target:  5'- aGACGGUcgacaccGCGUCGUagaacgCGUcGAGCGCCUGg -3'
miRNA:   3'- -UUGCCG-------CGCGGCA------GCAcCUUGCGGAC- -5'
17189 5' -60.5 NC_004333.2 + 33462 0.67 0.321413
Target:  5'- cAGCGGCGCGCCGggCGauccagaguugagUGG-GCGUCUu -3'
miRNA:   3'- -UUGCCGCGCGGCa-GC-------------ACCuUGCGGAc -5'
17189 5' -60.5 NC_004333.2 + 26046 0.68 0.285281
Target:  5'- cGACGGUGCGCCGgauuugccaGUGG--CGCCg- -3'
miRNA:   3'- -UUGCCGCGCGGCag-------CACCuuGCGGac -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.