miRNA display CGI


Results 1 - 19 of 19 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
12422 3' -55.6 NC_003324.1 + 54417 0.66 0.684342
Target:  5'- cCCgggACcGC-UGCCGggCCUCGACUGg -3'
miRNA:   3'- -GGa--UGuCGcACGGCgaGGAGCUGAUg -5'
12422 3' -55.6 NC_003324.1 + 50667 0.66 0.695138
Target:  5'- --gGCGGCGUGCCaGCccuuuUCCgUCGGCUc- -3'
miRNA:   3'- ggaUGUCGCACGG-CG-----AGG-AGCUGAug -5'
12422 3' -55.6 NC_003324.1 + 48515 0.67 0.673496
Target:  5'- uUCU-CGGCGcGgCGCUCUUCGAUgagGCg -3'
miRNA:   3'- -GGAuGUCGCaCgGCGAGGAGCUGa--UG- -5'
12422 3' -55.6 NC_003324.1 + 46010 0.66 0.737611
Target:  5'- gCCUGCGGCGUcGCuUGCUUCgcuuccgaagCGGCgGCg -3'
miRNA:   3'- -GGAUGUCGCA-CG-GCGAGGa---------GCUGaUG- -5'
12422 3' -55.6 NC_003324.1 + 43595 0.67 0.673496
Target:  5'- gCCUGauacuuGGCG-GUCGCg-CUCGACUGCu -3'
miRNA:   3'- -GGAUg-----UCGCaCGGCGagGAGCUGAUG- -5'
12422 3' -55.6 NC_003324.1 + 43318 0.66 0.716539
Target:  5'- cCCUGCAgGCG-GCCcccuacaucguGUUCCUUcGCUGCa -3'
miRNA:   3'- -GGAUGU-CGCaCGG-----------CGAGGAGcUGAUG- -5'
12422 3' -55.6 NC_003324.1 + 43130 0.66 0.716539
Target:  5'- uCCcGCAGguUGCCG-UCCUCGACgGCg -3'
miRNA:   3'- -GGaUGUCgcACGGCgAGGAGCUGaUG- -5'
12422 3' -55.6 NC_003324.1 + 40446 0.67 0.630925
Target:  5'- gUCUGCuuGCGUGCCGCcaucagugucUCCgcuucugggaagcagCGAUUGCa -3'
miRNA:   3'- -GGAUGu-CGCACGGCG----------AGGa--------------GCUGAUG- -5'
12422 3' -55.6 NC_003324.1 + 34829 0.68 0.597068
Target:  5'- gCCUGCAGCucGCCG-UCgUCGaACUGCu -3'
miRNA:   3'- -GGAUGUCGcaCGGCgAGgAGC-UGAUG- -5'
12422 3' -55.6 NC_003324.1 + 31098 0.74 0.281616
Target:  5'- cCUUGCGGCaaugcGCUGCUgCUCGGCUGCu -3'
miRNA:   3'- -GGAUGUCGca---CGGCGAgGAGCUGAUG- -5'
12422 3' -55.6 NC_003324.1 + 30380 0.68 0.564567
Target:  5'- cCCU-CGGCcaUGCCGC-CCUCGACcaggaUACg -3'
miRNA:   3'- -GGAuGUCGc-ACGGCGaGGAGCUG-----AUG- -5'
12422 3' -55.6 NC_003324.1 + 28933 0.71 0.422077
Target:  5'- uCCUGCuuuGGCGUGCCGC-CUggCG-CUGCu -3'
miRNA:   3'- -GGAUG---UCGCACGGCGaGGa-GCuGAUG- -5'
12422 3' -55.6 NC_003324.1 + 23875 0.67 0.629832
Target:  5'- --aGCAGCG-GaCCgaGCUCCUCGACgaucGCg -3'
miRNA:   3'- ggaUGUCGCaC-GG--CGAGGAGCUGa---UG- -5'
12422 3' -55.6 NC_003324.1 + 16740 0.66 0.705874
Target:  5'- aUCUGCccGGCGaguucaUGCCGCUCugcaCUCGACa-- -3'
miRNA:   3'- -GGAUG--UCGC------ACGGCGAG----GAGCUGaug -5'
12422 3' -55.6 NC_003324.1 + 13439 0.66 0.716539
Target:  5'- uCCguacgGCAGCGcGUCGCauguuuggUCCggcgCGGCUGCc -3'
miRNA:   3'- -GGa----UGUCGCaCGGCG--------AGGa---GCUGAUG- -5'
12422 3' -55.6 NC_003324.1 + 6808 1.12 0.000605
Target:  5'- cCCUACAGCGUGCCGCUCCUCGACUACg -3'
miRNA:   3'- -GGAUGUCGCACGGCGAGGAGCUGAUG- -5'
12422 3' -55.6 NC_003324.1 + 6310 0.67 0.662612
Target:  5'- gCUUGCuGCGcUGCUGCUgcgCCUCGGCc-- -3'
miRNA:   3'- -GGAUGuCGC-ACGGCGA---GGAGCUGaug -5'
12422 3' -55.6 NC_003324.1 + 4999 0.66 0.705874
Target:  5'- --aACGGCGUGaagaagacCCGCUUCaacaaccgCGACUACg -3'
miRNA:   3'- ggaUGUCGCAC--------GGCGAGGa-------GCUGAUG- -5'
12422 3' -55.6 NC_003324.1 + 2628 0.66 0.737611
Target:  5'- --aACGGCGUGCCGUcugccgUCCgUCGcCUGu -3'
miRNA:   3'- ggaUGUCGCACGGCG------AGG-AGCuGAUg -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.