miRNA display CGI


Results 1 - 17 of 17 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
28020 3' -50.8 NC_005887.1 + 18564 0.66 0.867085
Target:  5'- -cGGCuUCGCGGGCgacaUGCUcgUCGCGgcGUu -3'
miRNA:   3'- caUCG-AGCGCUUG----ACGA--AGUGCuuCA- -5'
28020 3' -50.8 NC_005887.1 + 22703 0.66 0.863653
Target:  5'- cGUAGCUCGcCGGAucCUGCgcuauaccagccaUCACGAcGGUg -3'
miRNA:   3'- -CAUCGAGC-GCUU--GACGa------------AGUGCU-UCA- -5'
28020 3' -50.8 NC_005887.1 + 28565 0.66 0.858425
Target:  5'- --uGUUCGCGGcggugacCUGCUUCACGgcGc -3'
miRNA:   3'- cauCGAGCGCUu------GACGAAGUGCuuCa -5'
28020 3' -50.8 NC_005887.1 + 29406 0.66 0.854885
Target:  5'- uGUAGCgUCGCGGcuuGCUGCggcagggacgcgcUCGCGAAa- -3'
miRNA:   3'- -CAUCG-AGCGCU---UGACGa------------AGUGCUUca -5'
28020 3' -50.8 NC_005887.1 + 28245 0.66 0.840312
Target:  5'- -cAGCuUCGCGAGCggcGCUUCACc---- -3'
miRNA:   3'- caUCG-AGCGCUUGa--CGAAGUGcuuca -5'
28020 3' -50.8 NC_005887.1 + 9637 0.66 0.839381
Target:  5'- gGUGGCUCGCGAugucgguguCUGCcgacuucgagacgUUCaagACGAAGg -3'
miRNA:   3'- -CAUCGAGCGCUu--------GACG-------------AAG---UGCUUCa -5'
28020 3' -50.8 NC_005887.1 + 26352 0.66 0.830881
Target:  5'- -cGGCUCGCGGcggguCUGCgcgcgCACGAc-- -3'
miRNA:   3'- caUCGAGCGCUu----GACGaa---GUGCUuca -5'
28020 3' -50.8 NC_005887.1 + 15761 0.67 0.797121
Target:  5'- -cAGCUCGCGAACgGCgccgucuacaagCAgGAGGa -3'
miRNA:   3'- caUCGAGCGCUUGaCGaa----------GUgCUUCa -5'
28020 3' -50.8 NC_005887.1 + 22130 0.67 0.780426
Target:  5'- uUGGCUCGCuGAucGCgcucgGCUUCaucgGCGAAGg -3'
miRNA:   3'- cAUCGAGCG-CU--UGa----CGAAG----UGCUUCa -5'
28020 3' -50.8 NC_005887.1 + 12326 0.68 0.769763
Target:  5'- -cAGCUCaGCGAACUGCguacgUCGCu---- -3'
miRNA:   3'- caUCGAG-CGCUUGACGa----AGUGcuuca -5'
28020 3' -50.8 NC_005887.1 + 29334 0.69 0.668235
Target:  5'- --uGCUCGa--GCUGCUUCACGGAa- -3'
miRNA:   3'- cauCGAGCgcuUGACGAAGUGCUUca -5'
28020 3' -50.8 NC_005887.1 + 17923 0.7 0.621533
Target:  5'- --uGCUCGCGAcCUGCgugcgCACGAAc- -3'
miRNA:   3'- cauCGAGCGCUuGACGaa---GUGCUUca -5'
28020 3' -50.8 NC_005887.1 + 40159 0.7 0.620364
Target:  5'- --cGCUCGCcgcguguGAGCUGCgcgacggCACGAAGg -3'
miRNA:   3'- cauCGAGCG-------CUUGACGaa-----GUGCUUCa -5'
28020 3' -50.8 NC_005887.1 + 29525 0.71 0.586573
Target:  5'- cUGGUUCGUGAauuccgggcucaGCUGCUuccccucguUCACGAGGg -3'
miRNA:   3'- cAUCGAGCGCU------------UGACGA---------AGUGCUUCa -5'
28020 3' -50.8 NC_005887.1 + 30896 0.71 0.574991
Target:  5'- --uGUUCGCGAGCUGCgcgUUGCGAu-- -3'
miRNA:   3'- cauCGAGCGCUUGACGa--AGUGCUuca -5'
28020 3' -50.8 NC_005887.1 + 16337 0.72 0.528161
Target:  5'- --cGC-CGCGAACUGCUUCAUcagcuugGGAGg -3'
miRNA:   3'- cauCGaGCGCUUGACGAAGUG-------CUUCa -5'
28020 3' -50.8 NC_005887.1 + 28481 1.07 0.002547
Target:  5'- gGUAGCUCGCGAACUGCUUCACGAAGUc -3'
miRNA:   3'- -CAUCGAGCGCUUGACGAAGUGCUUCA- -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.