miRNA display CGI


Results 1 - 20 of 30 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
9035 3' -59.9 NC_002512.2 + 5891 0.66 0.881628
Target:  5'- uCGUcGCuCGUGgacggCGGGGCGCGcGgGGg -3'
miRNA:   3'- -GCA-CGuGCACaga--GCCCCGCGC-CaCC- -5'
9035 3' -59.9 NC_002512.2 + 154893 0.66 0.881628
Target:  5'- --cGCGCGUGUg-CGGGGaggguGCuuGGUGGg -3'
miRNA:   3'- gcaCGUGCACAgaGCCCCg----CG--CCACC- -5'
9035 3' -59.9 NC_002512.2 + 90934 0.66 0.86812
Target:  5'- aCGgGCGCGa--C-CGGGGCGUGcGUGGg -3'
miRNA:   3'- -GCaCGUGCacaGaGCCCCGCGC-CACC- -5'
9035 3' -59.9 NC_002512.2 + 82353 0.66 0.86812
Target:  5'- gGUGgGCGUG-Cg-GGGGCGgCGGaGGg -3'
miRNA:   3'- gCACgUGCACaGagCCCCGC-GCCaCC- -5'
9035 3' -59.9 NC_002512.2 + 191028 0.66 0.861087
Target:  5'- gGUGCcuGCGaGg--CGGGGCGCGGcgcacgUGGa -3'
miRNA:   3'- gCACG--UGCaCagaGCCCCGCGCC------ACC- -5'
9035 3' -59.9 NC_002512.2 + 43076 0.66 0.861087
Target:  5'- --gGCAcCG-GUCcCGGGGCGCGGcGa -3'
miRNA:   3'- gcaCGU-GCaCAGaGCCCCGCGCCaCc -5'
9035 3' -59.9 NC_002512.2 + 210261 0.66 0.853873
Target:  5'- gCGUGCGCcgg-CUCGGGGgaGagggaGGUGGg -3'
miRNA:   3'- -GCACGUGcacaGAGCCCCg-Cg----CCACC- -5'
9035 3' -59.9 NC_002512.2 + 104782 0.66 0.853873
Target:  5'- aCG-GCGCGUGg--CGGGGUccgcgcGCGGcGGg -3'
miRNA:   3'- -GCaCGUGCACagaGCCCCG------CGCCaCC- -5'
9035 3' -59.9 NC_002512.2 + 228388 0.66 0.846484
Target:  5'- gGUGUccgGCGUGaUCUguccgggggaCGGGGCGCuGGgGGg -3'
miRNA:   3'- gCACG---UGCAC-AGA----------GCCCCGCG-CCaCC- -5'
9035 3' -59.9 NC_002512.2 + 91584 0.66 0.846484
Target:  5'- uCGgGCGCGUGUUUCGGGaG-GaaGUGGa -3'
miRNA:   3'- -GCaCGUGCACAGAGCCC-CgCgcCACC- -5'
9035 3' -59.9 NC_002512.2 + 114767 0.67 0.838925
Target:  5'- gGUGCGCGgGUCgcgaCGGGGCaCGGc-- -3'
miRNA:   3'- gCACGUGCaCAGa---GCCCCGcGCCacc -5'
9035 3' -59.9 NC_002512.2 + 119409 0.67 0.831202
Target:  5'- gCGUGC-CGcUG-CUCGGGaGCGUGGaccgcgGGg -3'
miRNA:   3'- -GCACGuGC-ACaGAGCCC-CGCGCCa-----CC- -5'
9035 3' -59.9 NC_002512.2 + 79032 0.67 0.822525
Target:  5'- aGUGgGCGUGgcuucggaacccaUCUCGGGgaaGCGCGGcgcGGu -3'
miRNA:   3'- gCACgUGCAC-------------AGAGCCC---CGCGCCa--CC- -5'
9035 3' -59.9 NC_002512.2 + 22575 0.68 0.781778
Target:  5'- gGUGCugGUGaacggCUCGGaGGCcaCGGUGc -3'
miRNA:   3'- gCACGugCACa----GAGCC-CCGc-GCCACc -5'
9035 3' -59.9 NC_002512.2 + 102938 0.68 0.75539
Target:  5'- --aGCGCcagaggGUCgacCGGGGCGCGGgcgGGu -3'
miRNA:   3'- gcaCGUGca----CAGa--GCCCCGCGCCa--CC- -5'
9035 3' -59.9 NC_002512.2 + 90097 0.68 0.753599
Target:  5'- cCGUGUGCGUGUaugucuucuggaUCGcGGGCGCccGGUGc -3'
miRNA:   3'- -GCACGUGCACAg-----------AGC-CCCGCG--CCACc -5'
9035 3' -59.9 NC_002512.2 + 228708 0.68 0.746395
Target:  5'- uCGUGCucCGUGUCgCGGGGgaagacgugaUGCGGgguagGGg -3'
miRNA:   3'- -GCACGu-GCACAGaGCCCC----------GCGCCa----CC- -5'
9035 3' -59.9 NC_002512.2 + 87348 0.69 0.737312
Target:  5'- gGUGCGCG-GUCgaCGGGGCGaacuguaccGUGGa -3'
miRNA:   3'- gCACGUGCaCAGa-GCCCCGCgc-------CACC- -5'
9035 3' -59.9 NC_002512.2 + 93629 0.69 0.718914
Target:  5'- aCGgGCGCGUG-CUCGGuGGCGuuGUGu -3'
miRNA:   3'- -GCaCGUGCACaGAGCC-CCGCgcCACc -5'
9035 3' -59.9 NC_002512.2 + 221367 0.69 0.700257
Target:  5'- cCGUGuCGguggUGUGUCcucuccucgggCGGGGCGCGGgcgGGg -3'
miRNA:   3'- -GCAC-GU----GCACAGa----------GCCCCGCGCCa--CC- -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.