miRNA display CGI


Results 1 - 18 of 18 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
18601 3' -57.2 NC_004682.1 + 46126 0.66 0.551432
Target:  5'- uGGccGCgucGGCaGCGCcGAGCGACAGc -3'
miRNA:   3'- gCUuuCGa--CCGgCGCGuCUCGCUGUU- -5'
18601 3' -57.2 NC_004682.1 + 20595 0.67 0.49805
Target:  5'- uGGucGCUGGCgaGCGUGGuGGCGACu- -3'
miRNA:   3'- gCUuuCGACCGg-CGCGUC-UCGCUGuu -5'
18601 3' -57.2 NC_004682.1 + 18089 0.67 0.467146
Target:  5'- aCGAAGGUgucggaaugggUGGCCagcuucGCGCAGGGCG-CGu -3'
miRNA:   3'- -GCUUUCG-----------ACCGG------CGCGUCUCGCuGUu -5'
18601 3' -57.2 NC_004682.1 + 11008 0.67 0.467146
Target:  5'- ---cGGCUGGCaagaGCGCAGccgaggcaucgGGCGGCGc -3'
miRNA:   3'- gcuuUCGACCGg---CGCGUC-----------UCGCUGUu -5'
18601 3' -57.2 NC_004682.1 + 17172 0.68 0.447103
Target:  5'- gCGAGGGCaaGGUCGUGUugaccuucaAGGGCGGCAc -3'
miRNA:   3'- -GCUUUCGa-CCGGCGCG---------UCUCGCUGUu -5'
18601 3' -57.2 NC_004682.1 + 38523 0.68 0.427547
Target:  5'- uGAucGGGCUcuGCCGCaGCAGAGCGAg-- -3'
miRNA:   3'- gCU--UUCGAc-CGGCG-CGUCUCGCUguu -5'
18601 3' -57.2 NC_004682.1 + 6150 0.68 0.427547
Target:  5'- aCGAcGGCgGGCCGCuGC-GAGuCGACGg -3'
miRNA:   3'- -GCUuUCGaCCGGCG-CGuCUC-GCUGUu -5'
18601 3' -57.2 NC_004682.1 + 18261 0.68 0.417961
Target:  5'- uCGAccuGGCUGucgguGCCGCGCAGAGgGuCGu -3'
miRNA:   3'- -GCUu--UCGAC-----CGGCGCGUCUCgCuGUu -5'
18601 3' -57.2 NC_004682.1 + 20195 0.68 0.408507
Target:  5'- gCGuc--CUGGCCGCGCugucGGGCGACc- -3'
miRNA:   3'- -GCuuucGACCGGCGCGu---CUCGCUGuu -5'
18601 3' -57.2 NC_004682.1 + 14277 0.69 0.380961
Target:  5'- cCGAcGGC-GGCaagcCGCAGGGCGGCGAg -3'
miRNA:   3'- -GCUuUCGaCCGgc--GCGUCUCGCUGUU- -5'
18601 3' -57.2 NC_004682.1 + 16519 0.69 0.372059
Target:  5'- gCGGAuGCUGGCCGacuacGGGCGGCAGg -3'
miRNA:   3'- -GCUUuCGACCGGCgcgu-CUCGCUGUU- -5'
18601 3' -57.2 NC_004682.1 + 48646 0.69 0.372059
Target:  5'- gCGAAGGuCUGGUCGaCGUAG-GCGAUg- -3'
miRNA:   3'- -GCUUUC-GACCGGC-GCGUCuCGCUGuu -5'
18601 3' -57.2 NC_004682.1 + 38110 0.69 0.372059
Target:  5'- gGGAAGUUgaGGCCGaCGCGGAGC-ACGu -3'
miRNA:   3'- gCUUUCGA--CCGGC-GCGUCUCGcUGUu -5'
18601 3' -57.2 NC_004682.1 + 42185 0.71 0.283732
Target:  5'- cCGAAcGCgaGGaCCGCGCAGAcgGCGGCGu -3'
miRNA:   3'- -GCUUuCGa-CC-GGCGCGUCU--CGCUGUu -5'
18601 3' -57.2 NC_004682.1 + 41883 0.72 0.224485
Target:  5'- gCGcGAGCUGGCCGCGCAGGaacCGGg-- -3'
miRNA:   3'- -GCuUUCGACCGGCGCGUCUc--GCUguu -5'
18601 3' -57.2 NC_004682.1 + 17340 0.73 0.196334
Target:  5'- -cGAAGCUGGCCcCGCAGcaggccgcuggcGGCGGCAAc -3'
miRNA:   3'- gcUUUCGACCGGcGCGUC------------UCGCUGUU- -5'
18601 3' -57.2 NC_004682.1 + 48019 0.74 0.180962
Target:  5'- uGAGGGCU-GCCGUGCGuGGCGACAc -3'
miRNA:   3'- gCUUUCGAcCGGCGCGUcUCGCUGUu -5'
18601 3' -57.2 NC_004682.1 + 18630 1.06 0.000815
Target:  5'- gCGAAAGCUGGCCGCGCAGAGCGACAAc -3'
miRNA:   3'- -GCUUUCGACCGGCGCGUCUCGCUGUU- -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.