miRNA display CGI


Results 1 - 19 of 19 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
13302 3' -61.1 NC_003409.1 + 133188 0.66 0.679975
Target:  5'- uAGGUGUCCGGUcCaucCGUGGGCu- -3'
miRNA:   3'- cUCCGCAGGCCAuGaccGCACCCGcg -5'
13302 3' -61.1 NC_003409.1 + 133308 0.66 0.670113
Target:  5'- aGGGCGUugCCaggaGUGgUGGCGaUGGuGCGCa -3'
miRNA:   3'- cUCCGCA--GGc---CAUgACCGC-ACC-CGCG- -5'
13302 3' -61.1 NC_003409.1 + 35626 0.66 0.670113
Target:  5'- gGAGGuCGUCCauauccGUGCUGGuUGUGgaGGUGCu -3'
miRNA:   3'- -CUCC-GCAGGc-----CAUGACC-GCAC--CCGCG- -5'
13302 3' -61.1 NC_003409.1 + 34136 0.66 0.660223
Target:  5'- uGGGUGUCCGuGagaugcCUGGCGUcGGCGa -3'
miRNA:   3'- cUCCGCAGGC-Cau----GACCGCAcCCGCg -5'
13302 3' -61.1 NC_003409.1 + 57494 0.66 0.660223
Target:  5'- -uGGUGUCaGGuUACUGGaCGUGGccaGCGUg -3'
miRNA:   3'- cuCCGCAGgCC-AUGACC-GCACC---CGCG- -5'
13302 3' -61.1 NC_003409.1 + 65711 0.67 0.630455
Target:  5'- aAGGCGUCCGu--CUGG-GUGGGagaccccaCGCa -3'
miRNA:   3'- cUCCGCAGGCcauGACCgCACCC--------GCG- -5'
13302 3' -61.1 NC_003409.1 + 54377 0.67 0.620525
Target:  5'- gGGGGUucccacGUCgGGauuUGCUGaCGUGGGCGUg -3'
miRNA:   3'- -CUCCG------CAGgCC---AUGACcGCACCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 111281 0.67 0.588837
Target:  5'- gGAGGUGUCUguGGUGggcuaaugucuaUGGCGUguggGGGCGUg -3'
miRNA:   3'- -CUCCGCAGG--CCAUg-----------ACCGCA----CCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 133037 0.68 0.532307
Target:  5'- -uGGUGUUugCGGUGgUGGCagaGUcGGGCGCg -3'
miRNA:   3'- cuCCGCAG--GCCAUgACCG---CA-CCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 26961 0.69 0.507582
Target:  5'- uGGGCGgaUCCGGagggaaggaagGGCG-GGGCGCg -3'
miRNA:   3'- cUCCGC--AGGCCauga-------CCGCaCCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 123759 0.69 0.494471
Target:  5'- -uGGCG-CCaugGGUGCUGGUGUgugugGGGgGCa -3'
miRNA:   3'- cuCCGCaGG---CCAUGACCGCA-----CCCgCG- -5'
13302 3' -61.1 NC_003409.1 + 87163 0.69 0.494471
Target:  5'- uGGGGUGggUGGUGCgccGGCGgaGGGCGUg -3'
miRNA:   3'- -CUCCGCagGCCAUGa--CCGCa-CCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 26335 0.69 0.470546
Target:  5'- cGGGUGgacgacauccagcucUCCGGUACaGGCGcagGGGUGUa -3'
miRNA:   3'- cUCCGC---------------AGGCCAUGaCCGCa--CCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 76689 0.7 0.431459
Target:  5'- uGGGgGUUgGGUugUGGCGUGGuG-GCu -3'
miRNA:   3'- cUCCgCAGgCCAugACCGCACC-CgCG- -5'
13302 3' -61.1 NC_003409.1 + 119793 0.72 0.35781
Target:  5'- --cGCGUgCCaGGcGCcGGCGUGGGCGCc -3'
miRNA:   3'- cucCGCA-GG-CCaUGaCCGCACCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 127119 0.72 0.325868
Target:  5'- aGGGCGcgCCGGUGCUccgucccgaccucaGGCGcauucccggGGGCGCc -3'
miRNA:   3'- cUCCGCa-GGCCAUGA--------------CCGCa--------CCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 13348 0.73 0.293432
Target:  5'- uAGuCGUCCGGggAgaGGUGUGGGUGCa -3'
miRNA:   3'- cUCcGCAGGCCa-UgaCCGCACCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 102011 0.73 0.274078
Target:  5'- -uGGCGaacacCCGGUAgaUGGCGaGGGCGCg -3'
miRNA:   3'- cuCCGCa----GGCCAUg-ACCGCaCCCGCG- -5'
13302 3' -61.1 NC_003409.1 + 50064 1.09 0.000866
Target:  5'- gGAGGCGUCCGGUACUGGCGUGGGCGCc -3'
miRNA:   3'- -CUCCGCAGGCCAUGACCGCACCCGCG- -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.