miRNA display CGI


Results 1 - 15 of 15 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
12101 3' -52.6 NC_003309.1 + 27166 0.66 0.882907
Target:  5'- aCCGGCgcGCCGGcGuugaccgugccgcgcUGAagaaUGUCCAUGCUUu -3'
miRNA:   3'- -GGCUG--UGGCCuU---------------ACU----ACAGGUACGGG- -5'
12101 3' -52.6 NC_003309.1 + 7098 0.66 0.872063
Target:  5'- aCCG-CGCCGGA--GAUGa-CAUGCUCc -3'
miRNA:   3'- -GGCuGUGGCCUuaCUACagGUACGGG- -5'
12101 3' -52.6 NC_003309.1 + 35464 0.66 0.864014
Target:  5'- aCCGACGCCGcccGAUGGUgaugguuggGUCC-UGCUUg -3'
miRNA:   3'- -GGCUGUGGCc--UUACUA---------CAGGuACGGG- -5'
12101 3' -52.6 NC_003309.1 + 11052 0.66 0.847188
Target:  5'- gCCG-CGCC-GAGUGcga-CCGUGCCCa -3'
miRNA:   3'- -GGCuGUGGcCUUACuacaGGUACGGG- -5'
12101 3' -52.6 NC_003309.1 + 19364 0.67 0.838428
Target:  5'- aCGGCGgCGGAGUGGUuuUCCcgGUCa -3'
miRNA:   3'- gGCUGUgGCCUUACUAc-AGGuaCGGg -5'
12101 3' -52.6 NC_003309.1 + 43951 0.67 0.823958
Target:  5'- uCgGGCAUCGGGuucggcuugugccagAUGAUGUCC-UGUCg -3'
miRNA:   3'- -GgCUGUGGCCU---------------UACUACAGGuACGGg -5'
12101 3' -52.6 NC_003309.1 + 16902 0.68 0.791525
Target:  5'- gCGGCGCCGaGAAUcGUGUUgAagaGCCCg -3'
miRNA:   3'- gGCUGUGGC-CUUAcUACAGgUa--CGGG- -5'
12101 3' -52.6 NC_003309.1 + 17474 0.69 0.738314
Target:  5'- cUCGACgGCCGGAAagcccggGAUGUagucugauccugCGUGCCCg -3'
miRNA:   3'- -GGCUG-UGGCCUUa------CUACAg-----------GUACGGG- -5'
12101 3' -52.6 NC_003309.1 + 19813 0.69 0.686555
Target:  5'- aCCaGACGCCGGcauUGAgcGUCuCGUcGCCCg -3'
miRNA:   3'- -GG-CUGUGGCCuu-ACUa-CAG-GUA-CGGG- -5'
12101 3' -52.6 NC_003309.1 + 13061 0.69 0.686555
Target:  5'- gCCGuucgaaagcuGCGCCGGGAUacUGUCgcucguggaCGUGCCCg -3'
miRNA:   3'- -GGC----------UGUGGCCUUAcuACAG---------GUACGGG- -5'
12101 3' -52.6 NC_003309.1 + 20607 0.7 0.664557
Target:  5'- uCUGcCGCCGcgcUGccGUCCAUGCCCu -3'
miRNA:   3'- -GGCuGUGGCcuuACuaCAGGUACGGG- -5'
12101 3' -52.6 NC_003309.1 + 7150 0.7 0.630247
Target:  5'- gCCGAUACCGGcccgauaGcgGAUG-CgCAUGCUCg -3'
miRNA:   3'- -GGCUGUGGCC-------UuaCUACaG-GUACGGG- -5'
12101 3' -52.6 NC_003309.1 + 20150 0.72 0.563042
Target:  5'- aCGACGCCGuuuucguUGUCgAUGCCCa -3'
miRNA:   3'- gGCUGUGGCcuuacu-ACAGgUACGGG- -5'
12101 3' -52.6 NC_003309.1 + 46981 0.76 0.332512
Target:  5'- gUCGACGCuCGGAuaGAUGUgCGUGCCg -3'
miRNA:   3'- -GGCUGUG-GCCUuaCUACAgGUACGGg -5'
12101 3' -52.6 NC_003309.1 + 3998 1.15 0.000816
Target:  5'- cCCGACACCGGAAUGAUGUCCAUGCCCg -3'
miRNA:   3'- -GGCUGUGGCCUUACUACAGGUACGGG- -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.