miRNA display CGI


Results 1 - 20 of 64 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
28084 3' -60.1 NC_005887.1 + 20657 0.66 0.423053
Target:  5'- --aCGAgacGCUCGCACCGUuugCAGCugcccCCGAc -3'
miRNA:   3'- gcaGCU---CGAGCGUGGCGa--GUCG-----GGCU- -5'
28084 3' -60.1 NC_005887.1 + 2053 0.69 0.25659
Target:  5'- uCGUCGAGCUCGaacgaAUCGagCGGCaCCGAc -3'
miRNA:   3'- -GCAGCUCGAGCg----UGGCgaGUCG-GGCU- -5'
28084 3' -60.1 NC_005887.1 + 40714 0.69 0.243887
Target:  5'- -uUCGAcGCUCGUGCCGUccUCgAGCUCGAa -3'
miRNA:   3'- gcAGCU-CGAGCGUGGCG--AG-UCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 6709 1.08 0.000278
Target:  5'- gCGUCGAGCUCGCACCGCUCAGCCCGAg -3'
miRNA:   3'- -GCAGCUCGAGCGUGGCGAGUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 8923 0.67 0.369347
Target:  5'- uCGUCGAGgaUCGU-CUGCUCGGUCgCGGu -3'
miRNA:   3'- -GCAGCUCg-AGCGuGGCGAGUCGG-GCU- -5'
28084 3' -60.1 NC_005887.1 + 37861 0.67 0.352512
Target:  5'- aCGcgCGAuGCgCGCGCCGUUCGGCaCCu- -3'
miRNA:   3'- -GCa-GCU-CGaGCGUGGCGAGUCG-GGcu -5'
28084 3' -60.1 NC_005887.1 + 1369 0.67 0.336228
Target:  5'- -uUCGAGCUCGgGCaCGUacaUCAGgCCCGc -3'
miRNA:   3'- gcAGCUCGAGCgUG-GCG---AGUC-GGGCu -5'
28084 3' -60.1 NC_005887.1 + 14146 0.67 0.328294
Target:  5'- cCGcCGAGacgCGCGgCGCUgaugcggcgcaCAGCCCGAu -3'
miRNA:   3'- -GCaGCUCga-GCGUgGCGA-----------GUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 12950 0.68 0.312845
Target:  5'- uGUCGAGCcugaucgcgacCGCGCCGCaUGGgCCGAg -3'
miRNA:   3'- gCAGCUCGa----------GCGUGGCGaGUCgGGCU- -5'
28084 3' -60.1 NC_005887.1 + 1547 0.69 0.26781
Target:  5'- uCGUCGAGCggcgcgUCGCcgccacgaaccucgACCGC-CGGCUCGGc -3'
miRNA:   3'- -GCAGCUCG------AGCG--------------UGGCGaGUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 16115 0.68 0.282213
Target:  5'- uCGUCGAGCggaucggacccgUGCGCCaGCUgCAGgCCGGc -3'
miRNA:   3'- -GCAGCUCGa-----------GCGUGG-CGA-GUCgGGCU- -5'
28084 3' -60.1 NC_005887.1 + 16865 0.68 0.312845
Target:  5'- uCGUcCGAGCcgcCGCugCGUUguGCCCa- -3'
miRNA:   3'- -GCA-GCUCGa--GCGugGCGAguCGGGcu -5'
28084 3' -60.1 NC_005887.1 + 38623 0.66 0.412858
Target:  5'- cCGUCcAGCUUGCGCggaucgcggucggCGCgCGGCUCGAc -3'
miRNA:   3'- -GCAGcUCGAGCGUG-------------GCGaGUCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 41564 0.68 0.281513
Target:  5'- uCG-CGAGCUCGCGCuCGUUuuuccacugauacgCGuGCCCGAu -3'
miRNA:   3'- -GCaGCUCGAGCGUG-GCGA--------------GU-CGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 32913 0.66 0.412858
Target:  5'- gGUCGuugguguAGCccgugauaGCACCGUUCcauAGCCCGAg -3'
miRNA:   3'- gCAGC-------UCGag------CGUGGCGAG---UCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 23977 0.68 0.3205
Target:  5'- uCG-CGAGCgccggCGCGCCGUcuacgcggaagUC-GCCCGAa -3'
miRNA:   3'- -GCaGCUCGa----GCGUGGCG-----------AGuCGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 39643 0.69 0.276655
Target:  5'- uCGUCGcgcGGCUCG-GCCGCUUgccGCCCGu -3'
miRNA:   3'- -GCAGC---UCGAGCgUGGCGAGu--CGGGCu -5'
28084 3' -60.1 NC_005887.1 + 1312 0.69 0.250172
Target:  5'- -cUCGAGCUCgaccuGCACCGCgCGGCgCCa- -3'
miRNA:   3'- gcAGCUCGAG-----CGUGGCGaGUCG-GGcu -5'
28084 3' -60.1 NC_005887.1 + 16214 0.66 0.390264
Target:  5'- uCGUCGAGCgccgcgaaacgaagCGCGCCGUgCAggacauccuGCUCGAc -3'
miRNA:   3'- -GCAGCUCGa-------------GCGUGGCGaGU---------CGGGCU- -5'
28084 3' -60.1 NC_005887.1 + 13934 0.67 0.352512
Target:  5'- --aCGAGCgccUGCGCgCGCUCGGCUgCGAc -3'
miRNA:   3'- gcaGCUCGa--GCGUG-GCGAGUCGG-GCU- -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.