miRNA display CGI


Results 1 - 20 of 28 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
17096 3' -59.6 NC_004333.2 + 14181 0.66 0.507513
Target:  5'- gCCggGUCgCUCGUCGGGa--UGCGGCa -3'
miRNA:   3'- -GGuaCAG-GAGCGGCUCgcaGCGCCGc -5'
17096 3' -59.6 NC_004333.2 + 42968 0.66 0.506504
Target:  5'- cCCGcacCCUCGCCggcggacGAGCGg-GCGGCGc -3'
miRNA:   3'- -GGUacaGGAGCGG-------CUCGCagCGCCGC- -5'
17096 3' -59.6 NC_004333.2 + 15481 0.66 0.497464
Target:  5'- gCGUG-CCgagCGCaacaGGGCugcUCGCGGCGg -3'
miRNA:   3'- gGUACaGGa--GCGg---CUCGc--AGCGCCGC- -5'
17096 3' -59.6 NC_004333.2 + 2735 0.66 0.487505
Target:  5'- uUCGUGcCCgucacaGCCGAGa-UCGCGGCc -3'
miRNA:   3'- -GGUACaGGag----CGGCUCgcAGCGCCGc -5'
17096 3' -59.6 NC_004333.2 + 28422 0.66 0.487505
Target:  5'- aCGUGUCg-CGCCG-GUGUCGCGcUGa -3'
miRNA:   3'- gGUACAGgaGCGGCuCGCAGCGCcGC- -5'
17096 3' -59.6 NC_004333.2 + 18192 0.66 0.477642
Target:  5'- -gAUG-CgCUCGUCGuGCG-CGCGGCa -3'
miRNA:   3'- ggUACaG-GAGCGGCuCGCaGCGCCGc -5'
17096 3' -59.6 NC_004333.2 + 21008 0.66 0.477642
Target:  5'- cCCGUGgcguagcCGCCGGGCGUCG-GGUu -3'
miRNA:   3'- -GGUACagga---GCGGCUCGCAGCgCCGc -5'
17096 3' -59.6 NC_004333.2 + 39804 0.66 0.467878
Target:  5'- aCCAUcgagcaGUCUUUGCCGAGCuugccgagGUCGCuugucgucaguGGCGc -3'
miRNA:   3'- -GGUA------CAGGAGCGGCUCG--------CAGCG-----------CCGC- -5'
17096 3' -59.6 NC_004333.2 + 3634 0.66 0.467878
Target:  5'- aCUAUGUggUCgGCCGAcGCGcugCGCGGCa -3'
miRNA:   3'- -GGUACAggAG-CGGCU-CGCa--GCGCCGc -5'
17096 3' -59.6 NC_004333.2 + 14076 0.67 0.442986
Target:  5'- aCCAUGUCC-CGUCGAaacgcaaagaagcgcGCGcagcUCGCGcGCa -3'
miRNA:   3'- -GGUACAGGaGCGGCU---------------CGC----AGCGC-CGc -5'
17096 3' -59.6 NC_004333.2 + 45143 0.67 0.420685
Target:  5'- gCCGUuUUCUUGcCCGGGCGcggccgCGCGGUGu -3'
miRNA:   3'- -GGUAcAGGAGC-GGCUCGCa-----GCGCCGC- -5'
17096 3' -59.6 NC_004333.2 + 12167 0.67 0.411596
Target:  5'- cUCGUGUCUcgCGCCGAGCcgcuucuUC-CGGCGu -3'
miRNA:   3'- -GGUACAGGa-GCGGCUCGc------AGcGCCGC- -5'
17096 3' -59.6 NC_004333.2 + 13953 0.68 0.376485
Target:  5'- cCCGUG-CCg-GCCGAcuucGCGcggCGCGGCGc -3'
miRNA:   3'- -GGUACaGGagCGGCU----CGCa--GCGCCGC- -5'
17096 3' -59.6 NC_004333.2 + 36313 0.68 0.368028
Target:  5'- cCCGaGUagUCGCCGGGCGUCGCaucGCc -3'
miRNA:   3'- -GGUaCAggAGCGGCUCGCAGCGc--CGc -5'
17096 3' -59.6 NC_004333.2 + 37395 0.68 0.359703
Target:  5'- cUCAUcGUCCUaCGUCG-GCGcUCGCGGUu -3'
miRNA:   3'- -GGUA-CAGGA-GCGGCuCGC-AGCGCCGc -5'
17096 3' -59.6 NC_004333.2 + 703 0.68 0.35151
Target:  5'- aUCGUG-CCgcCGCCcgcGAGCGcCGUGGCGa -3'
miRNA:   3'- -GGUACaGGa-GCGG---CUCGCaGCGCCGC- -5'
17096 3' -59.6 NC_004333.2 + 20490 0.69 0.335525
Target:  5'- aCGUGUUUUCGaaggcggugaCGAGCGgCGCGGCc -3'
miRNA:   3'- gGUACAGGAGCg---------GCUCGCaGCGCCGc -5'
17096 3' -59.6 NC_004333.2 + 38624 0.69 0.320077
Target:  5'- gCUGUGUCgUUGCCGugagcGCGUCGgaCGGCa -3'
miRNA:   3'- -GGUACAGgAGCGGCu----CGCAGC--GCCGc -5'
17096 3' -59.6 NC_004333.2 + 43187 0.69 0.320077
Target:  5'- gCCAU-UCCUgGUCGAGCGUUGCcucGCGc -3'
miRNA:   3'- -GGUAcAGGAgCGGCUCGCAGCGc--CGC- -5'
17096 3' -59.6 NC_004333.2 + 22540 0.69 0.312556
Target:  5'- aCGUGaUgUUGCCGAGCGacgagcgCGCGGUGa -3'
miRNA:   3'- gGUACaGgAGCGGCUCGCa------GCGCCGC- -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.