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 + 3647 0.66 0.313048
Target:  5'- aCGCCuGCgcGCcGCGa-GCCUGCCCGg -3'
miRNA:   3'- aGUGGcCGa-CGaCGCacCGGACGGGC- -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 + 6878 0.66 0.305709
Target:  5'- aCGCCGGUcGCcGuCGUGGCaccggCUGCCUa -3'
miRNA:   3'- aGUGGCCGaCGaC-GCACCG-----GACGGGc -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 + 15305 0.66 0.304982
Target:  5'- gCACCGGCgacauugUGCUGCGcGGCgacgacugGCUCGu -3'
miRNA:   3'- aGUGGCCG-------ACGACGCaCCGga------CGGGC- -5'
12779 3' -63.2 NC_003387.1 + 44504 0.66 0.298502
Target:  5'- cUCA-CGGCaGUUGCGUcuguucgugccgGGCC-GCCCGg -3'
miRNA:   3'- -AGUgGCCGaCGACGCA------------CCGGaCGGGC- -5'
12779 3' -63.2 NC_003387.1 + 34504 0.66 0.294242
Target:  5'- aCGCCcGCcGCUGCGgcgccgcgauccucGGgCUGCCCGu -3'
miRNA:   3'- aGUGGcCGaCGACGCa-------------CCgGACGGGC- -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 + 36605 0.66 0.282429
Target:  5'- aC-CCGGCguucgacucgcgGCUGC-UGGCCgccgcgaUGCCCGa -3'
miRNA:   3'- aGuGGCCGa-----------CGACGcACCGG-------ACGGGC- -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 + 2253 0.67 0.277675
Target:  5'- aCACCaaGGg-GCUGCGUGGgCgccccgaggUGCCCGa -3'
miRNA:   3'- aGUGG--CCgaCGACGCACCgG---------ACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 24846 0.67 0.277675
Target:  5'- gUCugCGGCcgGgUGCGUGGUggCUgGCUCGa -3'
miRNA:   3'- -AGugGCCGa-CgACGCACCG--GA-CGGGC- -5'
12779 3' -63.2 NC_003387.1 + 47394 0.67 0.277675
Target:  5'- aUCACCGGCcGauuagGCGuUGGCC-GUCCa -3'
miRNA:   3'- -AGUGGCCGaCga---CGC-ACCGGaCGGGc -5'
12779 3' -63.2 NC_003387.1 + 30367 0.67 0.277675
Target:  5'- gCGCCGGgUGC-GCcugGGCCaGCCCc -3'
miRNA:   3'- aGUGGCCgACGaCGca-CCGGaCGGGc -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 + 32300 0.67 0.270994
Target:  5'- gCACCGGCgGCUGCacaacCCgaUGCCCGa -3'
miRNA:   3'- aGUGGCCGaCGACGcacc-GG--ACGGGC- -5'
12779 3' -63.2 NC_003387.1 + 51223 0.67 0.268359
Target:  5'- -gACCGGCUGgUGCacgcugaccuugGGCCauaUGCCCa -3'
miRNA:   3'- agUGGCCGACgACGca----------CCGG---ACGGGc -5'
12779 3' -63.2 NC_003387.1 + 29693 0.67 0.260576
Target:  5'- cCGCCGGgcacguugaaCUGCUGCGUcgagccggugaugcgGGCCuUGCCg- -3'
miRNA:   3'- aGUGGCC----------GACGACGCA---------------CCGG-ACGGgc -5'
12779 3' -63.2 NC_003387.1 + 48932 0.67 0.245563
Target:  5'- uUUGCCGGCggguUGCUgGCGggcGGgCUGCUCGg -3'
miRNA:   3'- -AGUGGCCG----ACGA-CGCa--CCgGACGGGC- -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.