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 + 49989 1.07 0.000197
Target:  5'- uUCACCGGCUGCUGCGUGGCCUGCCCGc -3'
miRNA:   3'- -AGUGGCCGACGACGCACCGGACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 24109 0.77 0.046279
Target:  5'- aUCGCCuGGCaUGCggGCGUcggcagcuaucccGGCCUGCCCGa -3'
miRNA:   3'- -AGUGG-CCG-ACGa-CGCA-------------CCGGACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 46606 0.76 0.053378
Target:  5'- gCACCGGCaGgUGCGUGGUCuuggUGCCCa -3'
miRNA:   3'- aGUGGCCGaCgACGCACCGG----ACGGGc -5'
12779 3' -63.2 NC_003387.1 + 51681 0.74 0.076582
Target:  5'- gUugCGGCccuUGCUGCGUGGCUggUGaCCCGc -3'
miRNA:   3'- aGugGCCG---ACGACGCACCGG--AC-GGGC- -5'
12779 3' -63.2 NC_003387.1 + 45377 0.74 0.078722
Target:  5'- uUUGCCGGCgguuaGCUGCGcccGGCC-GCCCGa -3'
miRNA:   3'- -AGUGGCCGa----CGACGCa--CCGGaCGGGC- -5'
12779 3' -63.2 NC_003387.1 + 46117 0.74 0.083175
Target:  5'- --uCCGGCUGCUGCgGUGGCUcgggcgugaggUGCCgCGg -3'
miRNA:   3'- aguGGCCGACGACG-CACCGG-----------ACGG-GC- -5'
12779 3' -63.2 NC_003387.1 + 27914 0.73 0.095383
Target:  5'- aCGCCGaGCUGCUGCGccaGGUCgGCCgCGa -3'
miRNA:   3'- aGUGGC-CGACGACGCa--CCGGaCGG-GC- -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 + 6422 0.72 0.109273
Target:  5'- cCAgCGGCccGCUGCGccGCCUGCUCGg -3'
miRNA:   3'- aGUgGCCGa-CGACGCacCGGACGGGC- -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 + 27439 0.71 0.125042
Target:  5'- gUCGCCcuGGCUGaCUGCccgauGUGcGaCCUGCCCGa -3'
miRNA:   3'- -AGUGG--CCGAC-GACG-----CAC-C-GGACGGGC- -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 + 25824 0.71 0.13915
Target:  5'- -uGCuCGGCgGCcuggGCgGUGGCCUGCUCGg -3'
miRNA:   3'- agUG-GCCGaCGa---CG-CACCGGACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 42968 0.7 0.154704
Target:  5'- gCcCCGGCaUGC-GCGUGaGCCUGgCCGa -3'
miRNA:   3'- aGuGGCCG-ACGaCGCAC-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 + 31297 0.7 0.163058
Target:  5'- -aGCCGuaGCUGCUGCGccgGGCC-GCCgGg -3'
miRNA:   3'- agUGGC--CGACGACGCa--CCGGaCGGgC- -5'
12779 3' -63.2 NC_003387.1 + 26912 0.69 0.185262
Target:  5'- aCGCCGcGCUGCUGUuccuguucgccggGcUGGCCUGUCgGc -3'
miRNA:   3'- aGUGGC-CGACGACG-------------C-ACCGGACGGgC- -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 + 34422 0.69 0.191092
Target:  5'- cUCGCCGGCauucCUGCGcagcaaacgcagccgGGCCUGCCg- -3'
miRNA:   3'- -AGUGGCCGac--GACGCa--------------CCGGACGGgc -5'
12779 3' -63.2 NC_003387.1 + 45971 0.68 0.205849
Target:  5'- cUCGCCGG-UGCcgaGgGUGGCCUGgUCGa -3'
miRNA:   3'- -AGUGGCCgACGa--CgCACCGGACgGGC- -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.