miRNA display CGI


Results 1 - 20 of 45 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
12779 3' -63.2 NC_003387.1 + 511 0.68 0.227814
Target:  5'- gUCAgCaGGCUGCUcaGC--GGCCUGCUCGa -3'
miRNA:   3'- -AGUgG-CCGACGA--CGcaCCGGACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 2253 0.67 0.277675
Target:  5'- aCACCaaGGg-GCUGCGUGGgCgccccgaggUGCCCGa -3'
miRNA:   3'- aGUGG--CCgaCGACGCACCgG---------ACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 3647 0.66 0.313048
Target:  5'- aCGCCuGCgcGCcGCGa-GCCUGCCCGg -3'
miRNA:   3'- aGUGGcCGa-CGaCGCacCGGACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 4130 0.68 0.214952
Target:  5'- aCACCGcGCUGCguucacacgaucacUGCGUGuGCCUGgCgGu -3'
miRNA:   3'- aGUGGC-CGACG--------------ACGCAC-CGGACgGgC- -5'
12779 3' -63.2 NC_003387.1 + 4534 0.7 0.154704
Target:  5'- cCGCCGGUgcggGCaccuUGCG-GGCCUGCgCCu -3'
miRNA:   3'- aGUGGCCGa---CG----ACGCaCCGGACG-GGc -5'
12779 3' -63.2 NC_003387.1 + 4583 0.68 0.222143
Target:  5'- cUCGgUGGCgcGCUGCGcgcgGGUCUGCCaCGu -3'
miRNA:   3'- -AGUgGCCGa-CGACGCa---CCGGACGG-GC- -5'
12779 3' -63.2 NC_003387.1 + 6422 0.72 0.109273
Target:  5'- cCAgCGGCccGCUGCGccGCCUGCUCGg -3'
miRNA:   3'- aGUgGCCGa-CGACGCacCGGACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 6878 0.66 0.305709
Target:  5'- aCGCCGGUcGCcGuCGUGGCaccggCUGCCUa -3'
miRNA:   3'- aGUGGCCGaCGaC-GCACCG-----GACGGGc -5'
12779 3' -63.2 NC_003387.1 + 7839 0.67 0.277675
Target:  5'- gCGcCCGGCgGCUGCGUcagcucGGCCaGCaCCu -3'
miRNA:   3'- aGU-GGCCGaCGACGCA------CCGGaCG-GGc -5'
12779 3' -63.2 NC_003387.1 + 9811 0.66 0.305709
Target:  5'- -gACCGGCgcugcagGCUGCGcauuuugugcUGGCCcccgGCCUu -3'
miRNA:   3'- agUGGCCGa------CGACGC----------ACCGGa---CGGGc -5'
12779 3' -63.2 NC_003387.1 + 12455 0.72 0.118496
Target:  5'- uUCGCUGGCgGCgGCcUGGCCgcggGCCUGg -3'
miRNA:   3'- -AGUGGCCGaCGaCGcACCGGa---CGGGC- -5'
12779 3' -63.2 NC_003387.1 + 13510 0.66 0.305709
Target:  5'- uUCGCCGGUggagucGCUgacaGCGUcGGCCUggGCUCGc -3'
miRNA:   3'- -AGUGGCCGa-----CGA----CGCA-CCGGA--CGGGC- -5'
12779 3' -63.2 NC_003387.1 + 15305 0.66 0.304982
Target:  5'- gCACCGGCgacauugUGCUGCGcGGCgacgacugGCUCGu -3'
miRNA:   3'- aGUGGCCG-------ACGACGCaCCGga------CGGGC- -5'
12779 3' -63.2 NC_003387.1 + 15854 0.68 0.205849
Target:  5'- aCGCgGGCUGCaacgUGCGcgcguacaugUGG-CUGCCCGa -3'
miRNA:   3'- aGUGgCCGACG----ACGC----------ACCgGACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 17151 0.67 0.277675
Target:  5'- gUCACCGGCggcccgcGCUGagcugGUGcGCC-GCCUGg -3'
miRNA:   3'- -AGUGGCCGa------CGACg----CAC-CGGaCGGGC- -5'
12779 3' -63.2 NC_003387.1 + 18320 0.69 0.185741
Target:  5'- gCGcCCGGCaacgGCGUGGCCgucgUGCCCGc -3'
miRNA:   3'- aGU-GGCCGacgaCGCACCGG----ACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 20508 0.71 0.135492
Target:  5'- aCACCGGCaacaGCgguaGCGaUGcGCCUGCCCc -3'
miRNA:   3'- aGUGGCCGa---CGa---CGC-AC-CGGACGGGc -5'
12779 3' -63.2 NC_003387.1 + 21670 0.66 0.289332
Target:  5'- gUCGCCGGUgccaucggcgccggUGCcGUGcUGGCCgccGCCCc -3'
miRNA:   3'- -AGUGGCCG--------------ACGaCGC-ACCGGa--CGGGc -5'
12779 3' -63.2 NC_003387.1 + 23300 0.73 0.103503
Target:  5'- gCGCgGGCcGCUGCGgcGGCCUccuccugcGCCCGg -3'
miRNA:   3'- aGUGgCCGaCGACGCa-CCGGA--------CGGGC- -5'
12779 3' -63.2 NC_003387.1 + 23994 0.68 0.235958
Target:  5'- gCACCGcCUGCUcGCuccaccacuugagGGCCUGCCCu -3'
miRNA:   3'- aGUGGCcGACGA-CGca-----------CCGGACGGGc -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.