miRNA display CGI


Results 1 - 20 of 21 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
18604 5' -59.5 NC_004682.1 + 18618 0.66 0.484858
Target:  5'- --cGCCGAGCUGaAGCGaaaGCUGGCc -3'
miRNA:   3'- gacUGGCUCGACcUCGCag-UGGCCGu -5'
18604 5' -59.5 NC_004682.1 + 9533 0.66 0.484858
Target:  5'- -gGGCgagGAGCUGG-GCGUCgaccccgagACCGGCc -3'
miRNA:   3'- gaCUGg--CUCGACCuCGCAG---------UGGCCGu -5'
18604 5' -59.5 NC_004682.1 + 15926 0.67 0.426636
Target:  5'- aCUGACCGAGg-GGAugGUCGCCaacGGCGa -3'
miRNA:   3'- -GACUGGCUCgaCCUcgCAGUGG---CCGU- -5'
18604 5' -59.5 NC_004682.1 + 24907 0.67 0.426636
Target:  5'- -gGACCcGGCUGGAgGCGcaaccgCGCCGuGCGu -3'
miRNA:   3'- gaCUGGcUCGACCU-CGCa-----GUGGC-CGU- -5'
18604 5' -59.5 NC_004682.1 + 35832 0.67 0.41734
Target:  5'- -----gGAGCUGGAucGCGUCGucCCGGCGc -3'
miRNA:   3'- gacuggCUCGACCU--CGCAGU--GGCCGU- -5'
18604 5' -59.5 NC_004682.1 + 12171 0.67 0.408168
Target:  5'- -gGACCGGcacccuGCUGGAcaaCGUCACCGaGCc -3'
miRNA:   3'- gaCUGGCU------CGACCUc--GCAGUGGC-CGu -5'
18604 5' -59.5 NC_004682.1 + 2946 0.67 0.390207
Target:  5'- cCUGAUCGAcuuCUGGGGCGcgggCGgCGGCGc -3'
miRNA:   3'- -GACUGGCUc--GACCUCGCa---GUgGCCGU- -5'
18604 5' -59.5 NC_004682.1 + 41933 0.67 0.381422
Target:  5'- -aGACCGug--GGcAGCGggUCACCGGCAg -3'
miRNA:   3'- gaCUGGCucgaCC-UCGC--AGUGGCCGU- -5'
18604 5' -59.5 NC_004682.1 + 43475 0.68 0.372771
Target:  5'- gCUGuagacGCCaAGCUGGaAGuCGUCACCGGgGg -3'
miRNA:   3'- -GAC-----UGGcUCGACC-UC-GCAGUGGCCgU- -5'
18604 5' -59.5 NC_004682.1 + 5448 0.68 0.372771
Target:  5'- gCUGGCCGAuCUGaAGUGg-GCCGGCAu -3'
miRNA:   3'- -GACUGGCUcGACcUCGCagUGGCCGU- -5'
18604 5' -59.5 NC_004682.1 + 40333 0.68 0.364253
Target:  5'- -cGACCuGGGCcacgccuGCGUCACCGGCc -3'
miRNA:   3'- gaCUGG-CUCGaccu---CGCAGUGGCCGu -5'
18604 5' -59.5 NC_004682.1 + 2739 0.68 0.364253
Target:  5'- -cGACCGAGUgaUGcucGcCGUCACCGGCc -3'
miRNA:   3'- gaCUGGCUCG--ACcu-C-GCAGUGGCCGu -5'
18604 5' -59.5 NC_004682.1 + 10470 0.68 0.355872
Target:  5'- gCUGAUCGAGCUGGcccAGCGagGCuucgCGGUg -3'
miRNA:   3'- -GACUGGCUCGACC---UCGCagUG----GCCGu -5'
18604 5' -59.5 NC_004682.1 + 17974 0.68 0.355872
Target:  5'- -cGACgGAGCUGG-GCGUCcacgaaccGCCaGCGg -3'
miRNA:   3'- gaCUGgCUCGACCuCGCAG--------UGGcCGU- -5'
18604 5' -59.5 NC_004682.1 + 12043 0.69 0.323718
Target:  5'- cCUGGCCGAGaCgaccaaGGucGUGUCGCUGGCc -3'
miRNA:   3'- -GACUGGCUC-Ga-----CCu-CGCAGUGGCCGu -5'
18604 5' -59.5 NC_004682.1 + 7136 0.69 0.308472
Target:  5'- cCUGcCCGAgaagacgcucgGCUGGGGCGUCcugaACUGGUg -3'
miRNA:   3'- -GACuGGCU-----------CGACCUCGCAG----UGGCCGu -5'
18604 5' -59.5 NC_004682.1 + 32876 0.7 0.279639
Target:  5'- aUGAUCGAGac-GAGCGgcaggaUCGCCGGCAu -3'
miRNA:   3'- gACUGGCUCgacCUCGC------AGUGGCCGU- -5'
18604 5' -59.5 NC_004682.1 + 6880 0.7 0.279639
Target:  5'- aCUGAUCGAGCuUGGAcaGCGUCcgcucACCgagGGCAu -3'
miRNA:   3'- -GACUGGCUCG-ACCU--CGCAG-----UGG---CCGU- -5'
18604 5' -59.5 NC_004682.1 + 9112 0.71 0.228468
Target:  5'- cCUGACCG-GCUGGAGCauggagaaGUCgGCCagGGCGg -3'
miRNA:   3'- -GACUGGCuCGACCUCG--------CAG-UGG--CCGU- -5'
18604 5' -59.5 NC_004682.1 + 3692 0.72 0.195477
Target:  5'- gCUGACCGccacGGCgGGAGuCGUCGCugaCGGCGa -3'
miRNA:   3'- -GACUGGC----UCGaCCUC-GCAGUG---GCCGU- -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.