miRNA display CGI


Results 1 - 20 of 34 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
12480 5' -54.7 NC_003324.1 + 1742 0.67 0.685466
Target:  5'- cGCCGUCAGCGucagcAGGCGC---AGGcCGa -3'
miRNA:   3'- cCGGUAGUCGC-----UUCGCGaguUCCaGC- -5'
12480 5' -54.7 NC_003324.1 + 2176 0.66 0.739105
Target:  5'- uGCCGaCAGCGcagGAGCuGCUCAcgGGGcCGa -3'
miRNA:   3'- cCGGUaGUCGC---UUCG-CGAGU--UCCaGC- -5'
12480 5' -54.7 NC_003324.1 + 3801 0.66 0.749554
Target:  5'- aGCCAuUCAGCGggGauuaCGCUUuuggcGGUCa -3'
miRNA:   3'- cCGGU-AGUCGCuuC----GCGAGuu---CCAGc -5'
12480 5' -54.7 NC_003324.1 + 6202 0.66 0.749554
Target:  5'- cGCUAUCGGCGuAGGCGC---GGGUa- -3'
miRNA:   3'- cCGGUAGUCGC-UUCGCGaguUCCAgc -5'
12480 5' -54.7 NC_003324.1 + 8915 0.67 0.685466
Target:  5'- cGGCCGUguugauagaugCuGCG-AGCG-UCGAGGUCGc -3'
miRNA:   3'- -CCGGUA-----------GuCGCuUCGCgAGUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 11220 0.78 0.169649
Target:  5'- cGCCAgacCGGCGAAGCGgacCAAGGUCGg -3'
miRNA:   3'- cCGGUa--GUCGCUUCGCga-GUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 12887 0.67 0.67454
Target:  5'- cGCCAUCGuCGAugGGCGCgguguuGGUCGa -3'
miRNA:   3'- cCGGUAGUcGCU--UCGCGaguu--CCAGC- -5'
12480 5' -54.7 NC_003324.1 + 13180 0.74 0.317259
Target:  5'- -aCCGUCAGCGAGGCuGCgucggCGGcGGUCGg -3'
miRNA:   3'- ccGGUAGUCGCUUCG-CGa----GUU-CCAGC- -5'
12480 5' -54.7 NC_003324.1 + 14061 0.66 0.759883
Target:  5'- cGCCAUCGcccgauccGCaGAucggcaaagcAGCGCUCAAGGaagCGg -3'
miRNA:   3'- cCGGUAGU--------CG-CU----------UCGCGAGUUCCa--GC- -5'
12480 5' -54.7 NC_003324.1 + 14123 0.66 0.759883
Target:  5'- uGGCUGgaguuuUCGcGCGAGGCGUUUgcGGUCu -3'
miRNA:   3'- -CCGGU------AGU-CGCUUCGCGAGuuCCAGc -5'
12480 5' -54.7 NC_003324.1 + 14523 0.75 0.266128
Target:  5'- aGGgCGUCcGCGAcaaggcgcuGGCGCUCAAGGcCGa -3'
miRNA:   3'- -CCgGUAGuCGCU---------UCGCGAGUUCCaGC- -5'
12480 5' -54.7 NC_003324.1 + 14897 0.68 0.641562
Target:  5'- -cCCGagGGCGAcGCGCUCGAcgcGGUCa -3'
miRNA:   3'- ccGGUagUCGCUuCGCGAGUU---CCAGc -5'
12480 5' -54.7 NC_003324.1 + 18375 0.68 0.627231
Target:  5'- aGGCCGgggCAGCGAuugcccGCGCgucggccgauuccgUCAGcGGUCGc -3'
miRNA:   3'- -CCGGUa--GUCGCUu-----CGCG--------------AGUU-CCAGC- -5'
12480 5' -54.7 NC_003324.1 + 18670 0.66 0.770082
Target:  5'- uGCCcuugCGGUggauGAAGCGCUUgcgugcggaAAGGUCGg -3'
miRNA:   3'- cCGGua--GUCG----CUUCGCGAG---------UUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 19368 0.68 0.660277
Target:  5'- cGuCCGUCAGCGAuggaucgacgccGGCGCgCGucgcgccgugcaugAGGUCGg -3'
miRNA:   3'- cC-GGUAGUCGCU------------UCGCGaGU--------------UCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 21501 0.68 0.652577
Target:  5'- cGcCCGUC-GCGu--UGCUCAAGGUCGg -3'
miRNA:   3'- cC-GGUAGuCGCuucGCGAGUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 21859 0.69 0.597514
Target:  5'- gGGCCuccUCGGCGGccuuGGCcuucUUCGGGGUCGa -3'
miRNA:   3'- -CCGGu--AGUCGCU----UCGc---GAGUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 24824 0.68 0.652577
Target:  5'- cGGCa---GGCGGAucGCGCcgaCAAGGUCGg -3'
miRNA:   3'- -CCGguagUCGCUU--CGCGa--GUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 30102 0.68 0.630538
Target:  5'- cGCCuucgGUCAGCGAuuGCGa--AGGGUCGa -3'
miRNA:   3'- cCGG----UAGUCGCUu-CGCgagUUCCAGC- -5'
12480 5' -54.7 NC_003324.1 + 31315 0.69 0.597514
Target:  5'- cGGCCggCGGCGcuGGCGCUggCGGGGgcaUCGu -3'
miRNA:   3'- -CCGGuaGUCGCu-UCGCGA--GUUCC---AGC- -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.