miRNA display CGI


Results 1 - 20 of 57 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
12376 5' -53.5 NC_003324.1 + 7870 0.66 0.777026
Target:  5'- uUGUUcGCcGCGGCGGCAAAgcccguUGCGAucGCg -3'
miRNA:   3'- gACGA-CGaCGCCGUCGUUU------GCGUU--UG- -5'
12376 5' -53.5 NC_003324.1 + 33596 0.66 0.766595
Target:  5'- cCUGCUGCUuuGcGCAGCGcguUGCcGACg -3'
miRNA:   3'- -GACGACGAcgC-CGUCGUuu-GCGuUUG- -5'
12376 5' -53.5 NC_003324.1 + 12994 0.66 0.766595
Target:  5'- -cGCUGUUcGCGGCuGGCGAucUGCAGGg -3'
miRNA:   3'- gaCGACGA-CGCCG-UCGUUu-GCGUUUg -5'
12376 5' -53.5 NC_003324.1 + 1742 0.66 0.766595
Target:  5'- -cGCcGUcaGCGuCAGCAGGCGCAGGCc -3'
miRNA:   3'- gaCGaCGa-CGCcGUCGUUUGCGUUUG- -5'
12376 5' -53.5 NC_003324.1 + 48400 0.66 0.766595
Target:  5'- cCUGCUcgGCUGCGGCcuugGAACGCu--- -3'
miRNA:   3'- -GACGA--CGACGCCGucg-UUUGCGuuug -5'
12376 5' -53.5 NC_003324.1 + 8185 0.66 0.756015
Target:  5'- cCUGCUcaCUGCccGGCGGCGcGCGCcuGGCa -3'
miRNA:   3'- -GACGAc-GACG--CCGUCGUuUGCGu-UUG- -5'
12376 5' -53.5 NC_003324.1 + 49722 0.66 0.75495
Target:  5'- -cGCUGCccugcagGCGGgaugguuCAGCGGGCGCAc-- -3'
miRNA:   3'- gaCGACGa------CGCC-------GUCGUUUGCGUuug -5'
12376 5' -53.5 NC_003324.1 + 12502 0.66 0.752814
Target:  5'- gCUGCUGUUGCuGCAuCGAAUcgggaugggugccgGCGAGCa -3'
miRNA:   3'- -GACGACGACGcCGUcGUUUG--------------CGUUUG- -5'
12376 5' -53.5 NC_003324.1 + 33909 0.66 0.7453
Target:  5'- uUGCcGCgagGCGGCcguGCAAGcCGCAAu- -3'
miRNA:   3'- gACGaCGa--CGCCGu--CGUUU-GCGUUug -5'
12376 5' -53.5 NC_003324.1 + 37517 0.66 0.7453
Target:  5'- -cGC-GCUGUGcGCGGCAAuGCGCucgauAGCa -3'
miRNA:   3'- gaCGaCGACGC-CGUCGUU-UGCGu----UUG- -5'
12376 5' -53.5 NC_003324.1 + 57392 0.66 0.7453
Target:  5'- aCUGCUGgaG-GGCucGGCGGAgGCGAGg -3'
miRNA:   3'- -GACGACgaCgCCG--UCGUUUgCGUUUg -5'
12376 5' -53.5 NC_003324.1 + 29964 0.66 0.7453
Target:  5'- cCUGCguaGCgGCGGCAGCcgggucCGCAu-- -3'
miRNA:   3'- -GACGa--CGaCGCCGUCGuuu---GCGUuug -5'
12376 5' -53.5 NC_003324.1 + 55814 0.66 0.734463
Target:  5'- -gGCgUGCccucguggauuuUGCGGCAGCAgugacgGACGCAc-- -3'
miRNA:   3'- gaCG-ACG------------ACGCCGUCGU------UUGCGUuug -5'
12376 5' -53.5 NC_003324.1 + 52389 0.66 0.734463
Target:  5'- --cUUGCUGgGGUcGCAGACGCcGGCc -3'
miRNA:   3'- gacGACGACgCCGuCGUUUGCGuUUG- -5'
12376 5' -53.5 NC_003324.1 + 54881 0.66 0.734463
Target:  5'- -cGCgaacgGC-GCGGCGGUcugcGAUGCGAGCg -3'
miRNA:   3'- gaCGa----CGaCGCCGUCGu---UUGCGUUUG- -5'
12376 5' -53.5 NC_003324.1 + 28933 0.66 0.734463
Target:  5'- --aCUGCUcCGGCucGCAAGCGCGuGCu -3'
miRNA:   3'- gacGACGAcGCCGu-CGUUUGCGUuUG- -5'
12376 5' -53.5 NC_003324.1 + 11606 0.66 0.733373
Target:  5'- aCUGgUGC-GaCGGCAGCGAugaacguGCGCuuGAACg -3'
miRNA:   3'- -GACgACGaC-GCCGUCGUU-------UGCG--UUUG- -5'
12376 5' -53.5 NC_003324.1 + 5938 0.67 0.723516
Target:  5'- -cGCUGCUGgcuaucaGGCAGCGAACuacccgcCGAAUg -3'
miRNA:   3'- gaCGACGACg------CCGUCGUUUGc------GUUUG- -5'
12376 5' -53.5 NC_003324.1 + 23539 0.67 0.723516
Target:  5'- gUGCcccacaGC-GUGGCGGCGGGCGCGcucGGCg -3'
miRNA:   3'- gACGa-----CGaCGCCGUCGUUUGCGU---UUG- -5'
12376 5' -53.5 NC_003324.1 + 33672 0.67 0.723516
Target:  5'- -cGC-GCUGCGcaaaGCAGCAGGgGCGAu- -3'
miRNA:   3'- gaCGaCGACGC----CGUCGUUUgCGUUug -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.