miRNA display CGI


Results 1 - 20 of 21 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
19390 3' -49.5 NC_004685.1 + 11243 0.66 0.98007
Target:  5'- cCGAGGacauccUGCacgccGCGggUGAGGUGAu- -3'
miRNA:   3'- -GCUCC------AUGaau--CGCuuGCUCCACUug -5'
19390 3' -49.5 NC_004685.1 + 453 0.66 0.97983
Target:  5'- uGAGGUcggcgccaaagauGCgaucGGCGAugGcuucGGUGAGCg -3'
miRNA:   3'- gCUCCA-------------UGaa--UCGCUugCu---CCACUUG- -5'
19390 3' -49.5 NC_004685.1 + 63947 0.66 0.974856
Target:  5'- aGAGGUccgACgauccGGCGAGuguCGGGGUGAcugGCa -3'
miRNA:   3'- gCUCCA---UGaa---UCGCUU---GCUCCACU---UG- -5'
19390 3' -49.5 NC_004685.1 + 38943 0.66 0.968714
Target:  5'- aCGAGGUGCcgUGGguaGGuauCGcGGUGGACa -3'
miRNA:   3'- -GCUCCAUGa-AUCg--CUu--GCuCCACUUG- -5'
19390 3' -49.5 NC_004685.1 + 6067 0.67 0.965271
Target:  5'- uGAGGUGC--AGCGuuGCGAgugGGUGAu- -3'
miRNA:   3'- gCUCCAUGaaUCGCu-UGCU---CCACUug -5'
19390 3' -49.5 NC_004685.1 + 7878 0.67 0.964913
Target:  5'- uCGAGGUGCUgauGCGccacaaucucgauGACGAGGg---- -3'
miRNA:   3'- -GCUCCAUGAau-CGC-------------UUGCUCCacuug -5'
19390 3' -49.5 NC_004685.1 + 13371 0.67 0.961572
Target:  5'- -aGGGUGCUgcuCGAcuuCGAGGUGAAg -3'
miRNA:   3'- gcUCCAUGAaucGCUu--GCUCCACUUg -5'
19390 3' -49.5 NC_004685.1 + 22625 0.67 0.961572
Target:  5'- -aGGGUugGCaUGGCGAucacaguCGAGGUGAAg -3'
miRNA:   3'- gcUCCA--UGaAUCGCUu------GCUCCACUUg -5'
19390 3' -49.5 NC_004685.1 + 11485 0.67 0.957607
Target:  5'- uGAGugcGUGCaUGGCGcACcGGGUGAGCa -3'
miRNA:   3'- gCUC---CAUGaAUCGCuUGcUCCACUUG- -5'
19390 3' -49.5 NC_004685.1 + 14481 0.68 0.942575
Target:  5'- aCGAGGUGC-UGGaCGAguaccccagcuacgACGGGGUGcAUg -3'
miRNA:   3'- -GCUCCAUGaAUC-GCU--------------UGCUCCACuUG- -5'
19390 3' -49.5 NC_004685.1 + 41447 0.68 0.938992
Target:  5'- uGAcGGUGCg-GGUGAGCuGGGUGAAUu -3'
miRNA:   3'- gCU-CCAUGaaUCGCUUGcUCCACUUG- -5'
19390 3' -49.5 NC_004685.1 + 25621 0.68 0.922036
Target:  5'- cCGAGGUACUUGGUGAugGccGcGccGACg -3'
miRNA:   3'- -GCUCCAUGAAUCGCUugCucCaC--UUG- -5'
19390 3' -49.5 NC_004685.1 + 32633 0.69 0.90929
Target:  5'- aGuGGgugGCggaAGCGGugGuGGUGAACg -3'
miRNA:   3'- gCuCCa--UGaa-UCGCUugCuCCACUUG- -5'
19390 3' -49.5 NC_004685.1 + 23903 0.69 0.895404
Target:  5'- uCGuGGUGaagUGGCuGGGCGAGGUGuACc -3'
miRNA:   3'- -GCuCCAUga-AUCG-CUUGCUCCACuUG- -5'
19390 3' -49.5 NC_004685.1 + 59798 0.7 0.872506
Target:  5'- gCGGGacGUACccggccUUGGCGAugGcGGUGAACa -3'
miRNA:   3'- -GCUC--CAUG------AAUCGCUugCuCCACUUG- -5'
19390 3' -49.5 NC_004685.1 + 5991 0.7 0.861846
Target:  5'- aCGAGGUGCUguacagcuucgaGGCGuccucgaugccgcGGCGGGGUGAu- -3'
miRNA:   3'- -GCUCCAUGAa-----------UCGC-------------UUGCUCCACUug -5'
19390 3' -49.5 NC_004685.1 + 26943 0.72 0.770344
Target:  5'- gGGGGUGCagGGUgugcacgucgcgGAACGAGGUGGcgGCg -3'
miRNA:   3'- gCUCCAUGaaUCG------------CUUGCUCCACU--UG- -5'
19390 3' -49.5 NC_004685.1 + 20417 0.74 0.661576
Target:  5'- aGAGGgagACcgccaaGGCGGGCGAGGUGuGCg -3'
miRNA:   3'- gCUCCa--UGaa----UCGCUUGCUCCACuUG- -5'
19390 3' -49.5 NC_004685.1 + 18287 0.77 0.517104
Target:  5'- gCGGGGUAC--AGCG-GCGAGGUGAu- -3'
miRNA:   3'- -GCUCCAUGaaUCGCuUGCUCCACUug -5'
19390 3' -49.5 NC_004685.1 + 40725 0.78 0.454411
Target:  5'- uCGGGGUcACcgUAcCGAGCGGGGUGAGCg -3'
miRNA:   3'- -GCUCCA-UGa-AUcGCUUGCUCCACUUG- -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.