miRNA display CGI


Results 1 - 20 of 26 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
11518 5' -53.3 NC_003085.1 + 11633 0.66 0.804228
Target:  5'- gGGCagGACGg-UGCGUUGGC-GCAGGCc -3'
miRNA:   3'- -CCG--CUGCagACGCAGCUGaUGUUCGa -5'
11518 5' -53.3 NC_003085.1 + 26571 0.66 0.798373
Target:  5'- aGGCGAUGUCggccacagacuccgGCGUgGGgUGCA-GCa -3'
miRNA:   3'- -CCGCUGCAGa-------------CGCAgCUgAUGUuCGa -5'
11518 5' -53.3 NC_003085.1 + 225 0.66 0.794434
Target:  5'- gGGaCGACGUCaUGCG--GACUGCcuguAAGCUc -3'
miRNA:   3'- -CC-GCUGCAG-ACGCagCUGAUG----UUCGA- -5'
11518 5' -53.3 NC_003085.1 + 41050 0.66 0.784465
Target:  5'- cGGCuuGGCGggCUGCuacgCGACUGgGGGCUg -3'
miRNA:   3'- -CCG--CUGCa-GACGca--GCUGAUgUUCGA- -5'
11518 5' -53.3 NC_003085.1 + 3407 0.66 0.784465
Target:  5'- aGCGuCGUCUGUG-CGGCgACcAGCg -3'
miRNA:   3'- cCGCuGCAGACGCaGCUGaUGuUCGa -5'
11518 5' -53.3 NC_003085.1 + 33940 0.66 0.784465
Target:  5'- uGGCGAacgaGUCgccgUGCaGUUGACUACGugGGCc -3'
miRNA:   3'- -CCGCUg---CAG----ACG-CAGCUGAUGU--UCGa -5'
11518 5' -53.3 NC_003085.1 + 48391 0.66 0.774333
Target:  5'- cGGCGAgcagcgccgcauUGUCUGCcUCGGCgGCGcuGGCUu -3'
miRNA:   3'- -CCGCU------------GCAGACGcAGCUGaUGU--UCGA- -5'
11518 5' -53.3 NC_003085.1 + 37697 0.67 0.76818
Target:  5'- aGGCGguaccACGUCaaugcGCGUCGACUGCuacgacggaaccccAGCg -3'
miRNA:   3'- -CCGC-----UGCAGa----CGCAGCUGAUGu-------------UCGa -5'
11518 5' -53.3 NC_003085.1 + 48183 0.67 0.764049
Target:  5'- uGGCGACGUUgccGCcaaGUaCGACagcgACGGGCUg -3'
miRNA:   3'- -CCGCUGCAGa--CG---CA-GCUGa---UGUUCGA- -5'
11518 5' -53.3 NC_003085.1 + 30021 0.67 0.721636
Target:  5'- uGGCGACGUCgucCG-CGGCUuccagggccagcACAAGUUg -3'
miRNA:   3'- -CCGCUGCAGac-GCaGCUGA------------UGUUCGA- -5'
11518 5' -53.3 NC_003085.1 + 39027 0.68 0.710774
Target:  5'- aGGCGACGgcaUGCGUgGGC---GAGCg -3'
miRNA:   3'- -CCGCUGCag-ACGCAgCUGaugUUCGa -5'
11518 5' -53.3 NC_003085.1 + 14731 0.68 0.699832
Target:  5'- aGgGACGUCgUGCuggCGACUgACGAGCa -3'
miRNA:   3'- cCgCUGCAG-ACGca-GCUGA-UGUUCGa -5'
11518 5' -53.3 NC_003085.1 + 17332 0.68 0.699832
Target:  5'- uGCGACGUUUGaCGUgGAacccugGCGAGCc -3'
miRNA:   3'- cCGCUGCAGAC-GCAgCUga----UGUUCGa -5'
11518 5' -53.3 NC_003085.1 + 35481 0.68 0.677755
Target:  5'- gGGaUGACGUCcaaCGUCGGCUGCGcagAGCc -3'
miRNA:   3'- -CC-GCUGCAGac-GCAGCUGAUGU---UCGa -5'
11518 5' -53.3 NC_003085.1 + 28003 0.69 0.6555
Target:  5'- cGGaCG-CGUCUGCGUcaacgaCGGCUACGuggacGGCg -3'
miRNA:   3'- -CC-GCuGCAGACGCA------GCUGAUGU-----UCGa -5'
11518 5' -53.3 NC_003085.1 + 23728 0.69 0.621977
Target:  5'- gGGCGGCGUucgcCUGCG-CGGcCUGCucGCg -3'
miRNA:   3'- -CCGCUGCA----GACGCaGCU-GAUGuuCGa -5'
11518 5' -53.3 NC_003085.1 + 8032 0.69 0.610807
Target:  5'- uGGCGuACGggaCUGCGcUCGACaACGcAGCUg -3'
miRNA:   3'- -CCGC-UGCa--GACGC-AGCUGaUGU-UCGA- -5'
11518 5' -53.3 NC_003085.1 + 730 0.69 0.610807
Target:  5'- cGGCGACGUCcggGCGgu-GCU-CGAGCg -3'
miRNA:   3'- -CCGCUGCAGa--CGCagcUGAuGUUCGa -5'
11518 5' -53.3 NC_003085.1 + 1737 0.69 0.599656
Target:  5'- gGGUGACGUCgccGCGUUgguaguaggGACgGCAGGCc -3'
miRNA:   3'- -CCGCUGCAGa--CGCAG---------CUGaUGUUCGa -5'
11518 5' -53.3 NC_003085.1 + 21531 0.7 0.57745
Target:  5'- cGGCgcuGACGUCccUGCGU-GACUACcGGCg -3'
miRNA:   3'- -CCG---CUGCAG--ACGCAgCUGAUGuUCGa -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.