miRNA display CGI


Results 1 - 20 of 33 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
5399 5' -60.2 NC_001798.1 + 11635 0.76 0.210688
Target:  5'- cGGGCGcG-GGCGUCCCUGUguccccgggGGCGGGGGu -3'
miRNA:   3'- -CCCGC-CaCUGCAGGGACG---------UCGUCCUU- -5'
5399 5' -60.2 NC_001798.1 + 79299 0.75 0.237506
Target:  5'- uGGGCGGUGGaggaGUUCCgggGCGcGCGGGAAc -3'
miRNA:   3'- -CCCGCCACUg---CAGGGa--CGU-CGUCCUU- -5'
5399 5' -60.2 NC_001798.1 + 150934 0.73 0.313501
Target:  5'- cGGGCGG-GACGuagUCCaCUGCAGaGGGAGa -3'
miRNA:   3'- -CCCGCCaCUGC---AGG-GACGUCgUCCUU- -5'
5399 5' -60.2 NC_001798.1 + 56400 0.7 0.47744
Target:  5'- --uCGGUGGgGUCCC-GCGGCGGGGg -3'
miRNA:   3'- cccGCCACUgCAGGGaCGUCGUCCUu -5'
5399 5' -60.2 NC_001798.1 + 70451 0.69 0.511283
Target:  5'- uGGCGGUGGCGcUCCCcgagacccccgagGCGGCcuuccGGGAGa -3'
miRNA:   3'- cCCGCCACUGC-AGGGa------------CGUCG-----UCCUU- -5'
5399 5' -60.2 NC_001798.1 + 53106 0.69 0.534389
Target:  5'- cGGGCGcGcGGCGcgagcUCCCUGCGGCuGGc- -3'
miRNA:   3'- -CCCGC-CaCUGC-----AGGGACGUCGuCCuu -5'
5399 5' -60.2 NC_001798.1 + 154128 0.69 0.534389
Target:  5'- cGGCGGgGAC--CCCgGCGGCGGGAc -3'
miRNA:   3'- cCCGCCaCUGcaGGGaCGUCGUCCUu -5'
5399 5' -60.2 NC_001798.1 + 7195 0.69 0.544126
Target:  5'- gGGGCGGcGACcaugaUCCgGCGGCGGGGAa -3'
miRNA:   3'- -CCCGCCaCUGca---GGGaCGUCGUCCUU- -5'
5399 5' -60.2 NC_001798.1 + 88060 0.68 0.563767
Target:  5'- gGGGCGGgcuCGUCCCcugggGCGGCGGc-- -3'
miRNA:   3'- -CCCGCCacuGCAGGGa----CGUCGUCcuu -5'
5399 5' -60.2 NC_001798.1 + 2576 0.68 0.563767
Target:  5'- gGGGCGGggGGCGUCCgC-GCGGCucuucuucGGGGGg -3'
miRNA:   3'- -CCCGCCa-CUGCAGG-GaCGUCG--------UCCUU- -5'
5399 5' -60.2 NC_001798.1 + 109697 0.68 0.572668
Target:  5'- uGGCGGgcGCG-CCCUcggccgaGCAGCGGGAAc -3'
miRNA:   3'- cCCGCCacUGCaGGGA-------CGUCGUCCUU- -5'
5399 5' -60.2 NC_001798.1 + 2441 0.68 0.593556
Target:  5'- cGGCGGcUGGCGgcgccagccgCCCUGCGGguCGGGGc -3'
miRNA:   3'- cCCGCC-ACUGCa---------GGGACGUC--GUCCUu -5'
5399 5' -60.2 NC_001798.1 + 2538 0.68 0.593556
Target:  5'- gGGGCGGggGGCGcggCCCccGCGGgAGGGg -3'
miRNA:   3'- -CCCGCCa-CUGCa--GGGa-CGUCgUCCUu -5'
5399 5' -60.2 NC_001798.1 + 27038 0.67 0.63362
Target:  5'- cGGGCGGgcgGcACGUCuCCcGCGcccGCGGGGGg -3'
miRNA:   3'- -CCCGCCa--C-UGCAG-GGaCGU---CGUCCUU- -5'
5399 5' -60.2 NC_001798.1 + 2961 0.67 0.63362
Target:  5'- aGGCGGggcGCGUCggCgUGCGGCGGGGc -3'
miRNA:   3'- cCCGCCac-UGCAG--GgACGUCGUCCUu -5'
5399 5' -60.2 NC_001798.1 + 71 0.67 0.661681
Target:  5'- cGGGCGGcGGCGgcgggcggGCGGCAGGGc -3'
miRNA:   3'- -CCCGCCaCUGCaggga---CGUCGUCCUu -5'
5399 5' -60.2 NC_001798.1 + 154409 0.67 0.661681
Target:  5'- cGGGCGGcGGCGgcgggcggGCGGCAGGGc -3'
miRNA:   3'- -CCCGCCaCUGCaggga---CGUCGUCCUu -5'
5399 5' -60.2 NC_001798.1 + 44281 0.67 0.662681
Target:  5'- gGGGCGGUGcUG-CCgCUGCcgaugcgGGCGGGGg -3'
miRNA:   3'- -CCCGCCACuGCaGG-GACG-------UCGUCCUu -5'
5399 5' -60.2 NC_001798.1 + 137150 0.67 0.66368
Target:  5'- uGGgGGUGACGUCaacGC-GCAGGAc -3'
miRNA:   3'- cCCgCCACUGCAGggaCGuCGUCCUu -5'
5399 5' -60.2 NC_001798.1 + 129276 0.67 0.66368
Target:  5'- --cUGGUGACGUUCCU-CGGCAGGc- -3'
miRNA:   3'- cccGCCACUGCAGGGAcGUCGUCCuu -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.