miRNA display CGI


Results 1 - 20 of 75 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
12901 3' -60.8 NC_003387.1 + 12439 0.66 0.415402
Target:  5'- uUGCgGGCCgucGCGGCGGCGUUgGu-- -3'
miRNA:   3'- gGCGaCUGGa--CGCCGCCGCGGgUuaa -5'
12901 3' -60.8 NC_003387.1 + 8083 0.66 0.415402
Target:  5'- cCCGCUG-CCgGuCGGCGccaaccCGCCCGAg- -3'
miRNA:   3'- -GGCGACuGGaC-GCCGCc-----GCGGGUUaa -5'
12901 3' -60.8 NC_003387.1 + 18746 0.66 0.415402
Target:  5'- aCCGC-GACCcGCuGCGGCaGCUCAu-- -3'
miRNA:   3'- -GGCGaCUGGaCGcCGCCG-CGGGUuaa -5'
12901 3' -60.8 NC_003387.1 + 5826 0.66 0.415402
Target:  5'- cCCGCgcaaGGCg-GCGGCGGCcucaaGUCCGGUg -3'
miRNA:   3'- -GGCGa---CUGgaCGCCGCCG-----CGGGUUAa -5'
12901 3' -60.8 NC_003387.1 + 4680 0.66 0.415402
Target:  5'- gCCGCcuUGGCUUGCuGCGcGCGUUCGAg- -3'
miRNA:   3'- -GGCG--ACUGGACGcCGC-CGCGGGUUaa -5'
12901 3' -60.8 NC_003387.1 + 51302 0.66 0.406305
Target:  5'- gCCaGCUcgUCgGCGGCGGCGCCUc--- -3'
miRNA:   3'- -GG-CGAcuGGaCGCCGCCGCGGGuuaa -5'
12901 3' -60.8 NC_003387.1 + 24934 0.66 0.406305
Target:  5'- gCCGC-GACC-GaCGGCGGgcCGCCUGAUg -3'
miRNA:   3'- -GGCGaCUGGaC-GCCGCC--GCGGGUUAa -5'
12901 3' -60.8 NC_003387.1 + 10069 0.66 0.400907
Target:  5'- gCCGCggGAacgggucgggugcgcCCUGCGGCGgauucuuaugcGCGCCCu--- -3'
miRNA:   3'- -GGCGa-CU---------------GGACGCCGC-----------CGCGGGuuaa -5'
12901 3' -60.8 NC_003387.1 + 45857 0.66 0.397334
Target:  5'- aUCGC-GGCCUGCgcagcggcgGGCaGGCGCCaCAGc- -3'
miRNA:   3'- -GGCGaCUGGACG---------CCG-CCGCGG-GUUaa -5'
12901 3' -60.8 NC_003387.1 + 48321 0.66 0.397334
Target:  5'- gCUGCUGGCC-GCGGCcgaccgGGCGCgacaCGAUc -3'
miRNA:   3'- -GGCGACUGGaCGCCG------CCGCGg---GUUAa -5'
12901 3' -60.8 NC_003387.1 + 38018 0.66 0.397334
Target:  5'- aCCGCUGucucgaacuugGCgUGCccGGCGGUGCCgAGc- -3'
miRNA:   3'- -GGCGAC-----------UGgACG--CCGCCGCGGgUUaa -5'
12901 3' -60.8 NC_003387.1 + 3380 0.66 0.388491
Target:  5'- -aGCUGGCCU-CGGCGGgcauCCCGAUc -3'
miRNA:   3'- ggCGACUGGAcGCCGCCgc--GGGUUAa -5'
12901 3' -60.8 NC_003387.1 + 25822 0.66 0.388491
Target:  5'- cCUGCUcggcGGCCUggGCGGUGGCcuGCUCGGUg -3'
miRNA:   3'- -GGCGA----CUGGA--CGCCGCCG--CGGGUUAa -5'
12901 3' -60.8 NC_003387.1 + 14119 0.66 0.388491
Target:  5'- uCCGCUGAaagUGCGG-GuGCGCCgGAUUc -3'
miRNA:   3'- -GGCGACUgg-ACGCCgC-CGCGGgUUAA- -5'
12901 3' -60.8 NC_003387.1 + 41668 0.66 0.379778
Target:  5'- aCUGC-GACCUGUGGUucGGCGucaaCCCGAc- -3'
miRNA:   3'- -GGCGaCUGGACGCCG--CCGC----GGGUUaa -5'
12901 3' -60.8 NC_003387.1 + 4557 0.66 0.379778
Target:  5'- uCCGCgggcucGGCCUucGCGGCGG-GCUCGGc- -3'
miRNA:   3'- -GGCGa-----CUGGA--CGCCGCCgCGGGUUaa -5'
12901 3' -60.8 NC_003387.1 + 36828 0.66 0.379778
Target:  5'- cCUGCgUGAgaucCCgGCGGCGGCGCUguGa- -3'
miRNA:   3'- -GGCG-ACU----GGaCGCCGCCGCGGguUaa -5'
12901 3' -60.8 NC_003387.1 + 1229 0.66 0.379778
Target:  5'- cCCGCUGAuCCUGCuGGCcGGUacGCCa---- -3'
miRNA:   3'- -GGCGACU-GGACG-CCG-CCG--CGGguuaa -5'
12901 3' -60.8 NC_003387.1 + 38889 0.66 0.379778
Target:  5'- cCCGCUcGGCaaggGCuGGUGGCGCUgAGUUu -3'
miRNA:   3'- -GGCGA-CUGga--CG-CCGCCGCGGgUUAA- -5'
12901 3' -60.8 NC_003387.1 + 44832 0.66 0.378914
Target:  5'- gCCGCUucacggcgggcggGugCUGCGcuuCGGCGCCCc--- -3'
miRNA:   3'- -GGCGA-------------CugGACGCc--GCCGCGGGuuaa -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.