miRNA display CGI


Results 1 - 20 of 20 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
19708 3' -56.8 NC_004686.1 + 34068 0.66 0.620805
Target:  5'- -aGCggUGcCGCCGAG-GCcgCgCGCGCCa -3'
miRNA:   3'- aaCGa-AC-GCGGCUUaCGa-GgGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 8692 0.66 0.620805
Target:  5'- -cGCUc-CGCCGAAguCUCCCguucGCACCg -3'
miRNA:   3'- aaCGAacGCGGCUUacGAGGG----CGUGG- -5'
19708 3' -56.8 NC_004686.1 + 51078 0.66 0.598736
Target:  5'- -gGCUgaacCGCUGggUGa-CCUGCACCu -3'
miRNA:   3'- aaCGAac--GCGGCuuACgaGGGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 16517 0.66 0.58774
Target:  5'- -gGCUU-CGCCGcggcuGAUGCcgUgCCGCACCc -3'
miRNA:   3'- aaCGAAcGCGGC-----UUACG--AgGGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 47298 0.66 0.577876
Target:  5'- cUUGCgaagUGCGCCGccuacgacccgugGUUUCCGCAgCCg -3'
miRNA:   3'- -AACGa---ACGCGGCuua----------CGAGGGCGU-GG- -5'
19708 3' -56.8 NC_004686.1 + 52203 0.66 0.56587
Target:  5'- -gGCcgggUGCGCCGcAUGUaUCCgCGUGCCu -3'
miRNA:   3'- aaCGa---ACGCGGCuUACG-AGG-GCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 44062 0.67 0.555012
Target:  5'- -cGCcgGCGCCGAAacUGCcCgCCGUugCg -3'
miRNA:   3'- aaCGaaCGCGGCUU--ACGaG-GGCGugG- -5'
19708 3' -56.8 NC_004686.1 + 28683 0.67 0.555012
Target:  5'- -aGUUUGUGCUGcauGAUGCcacucguaCCCGCAUCg -3'
miRNA:   3'- aaCGAACGCGGC---UUACGa-------GGGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 47560 0.67 0.544215
Target:  5'- -aGUUggaGCGCCGGcUGg-CCCGCGCUg -3'
miRNA:   3'- aaCGAa--CGCGGCUuACgaGGGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 36283 0.67 0.543139
Target:  5'- gUGCggGCuggugauguacaaGCCGAcaccagGC-CCCGCACCa -3'
miRNA:   3'- aACGaaCG-------------CGGCUua----CGaGGGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 50041 0.67 0.533488
Target:  5'- -gGCUUGCGaCC-AGcGCaUCaCCGCGCCg -3'
miRNA:   3'- aaCGAACGC-GGcUUaCG-AG-GGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 12008 0.67 0.5186
Target:  5'- -gGCUgGUGCCGAAUGCgguugugagaucaCCCaugcccgguccgGCACCg -3'
miRNA:   3'- aaCGAaCGCGGCUUACGa------------GGG------------CGUGG- -5'
19708 3' -56.8 NC_004686.1 + 39848 0.67 0.512269
Target:  5'- -gGCagUGCGCUGAAUgGCgagugaucgCCCGCAUg -3'
miRNA:   3'- aaCGa-ACGCGGCUUA-CGa--------GGGCGUGg -5'
19708 3' -56.8 NC_004686.1 + 1030 0.67 0.501791
Target:  5'- -gGCgucggcgGCuGCCGGuucgagucgGUGUUCCCGCACg -3'
miRNA:   3'- aaCGaa-----CG-CGGCU---------UACGAGGGCGUGg -5'
19708 3' -56.8 NC_004686.1 + 5565 0.68 0.450928
Target:  5'- -gGCUgugaccGCGUCGAccgGUGUguaCCGCACCa -3'
miRNA:   3'- aaCGAa-----CGCGGCU---UACGag-GGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 32976 0.69 0.412347
Target:  5'- gUGCcUGuUGCCGcac-CUCCCGCGCCu -3'
miRNA:   3'- aACGaAC-GCGGCuuacGAGGGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 33940 0.69 0.396578
Target:  5'- -aGCUUGcCGCCGccgcccuuaccgccaGCgCCCGCGCCg -3'
miRNA:   3'- aaCGAAC-GCGGCuua------------CGaGGGCGUGG- -5'
19708 3' -56.8 NC_004686.1 + 14458 0.7 0.358472
Target:  5'- aUGCUUGaggaCGCCGAacuguccgugcaGUGCaCCCGCuACCu -3'
miRNA:   3'- aACGAAC----GCGGCU------------UACGaGGGCG-UGG- -5'
19708 3' -56.8 NC_004686.1 + 33170 0.7 0.341642
Target:  5'- -gGC-UGUGCCGuuuccUGCUCCUGCuaGCCg -3'
miRNA:   3'- aaCGaACGCGGCuu---ACGAGGGCG--UGG- -5'
19708 3' -56.8 NC_004686.1 + 45722 1.08 0.000653
Target:  5'- gUUGCUUGCGCCGAAUGCUCCCGCACCc -3'
miRNA:   3'- -AACGAACGCGGCUUACGAGGGCGUGG- -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.