miRNA display CGI


Results 1 - 20 of 24 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
26708 3' -54.4 NC_005808.1 + 11144 0.66 0.65547
Target:  5'- uUCGGCCUgcUGCUgggCCGCCugcGCaCGUUGc -3'
miRNA:   3'- cAGUCGGA--ACGAa--GGCGGc--UG-GUAAU- -5'
26708 3' -54.4 NC_005808.1 + 27446 0.66 0.65547
Target:  5'- aUCAGCCgucgcccuggGCgcaUCCGCCG-CCAg-- -3'
miRNA:   3'- cAGUCGGaa--------CGa--AGGCGGCuGGUaau -5'
26708 3' -54.4 NC_005808.1 + 340 0.66 0.65547
Target:  5'- gGUCGuGCCacacgUGCU--CGCCGACCAUc- -3'
miRNA:   3'- -CAGU-CGGa----ACGAagGCGGCUGGUAau -5'
26708 3' -54.4 NC_005808.1 + 34355 0.66 0.645136
Target:  5'- --gGGCCgcuugaagcgcaagcUGCUgacggCCGCCGACCAg-- -3'
miRNA:   3'- cagUCGGa--------------ACGAa----GGCGGCUGGUaau -5'
26708 3' -54.4 NC_005808.1 + 10531 0.66 0.643986
Target:  5'- -cCGGCCacGCuUUCCGCCG-CCAc-- -3'
miRNA:   3'- caGUCGGaaCG-AAGGCGGCuGGUaau -5'
26708 3' -54.4 NC_005808.1 + 8831 0.66 0.63249
Target:  5'- uGUCGGCCUUGauaccgUCCucGCCGACg---- -3'
miRNA:   3'- -CAGUCGGAACga----AGG--CGGCUGguaau -5'
26708 3' -54.4 NC_005808.1 + 20259 0.66 0.620993
Target:  5'- gGUCGGCUgUUGCUgCUGuuGGCCGUc- -3'
miRNA:   3'- -CAGUCGG-AACGAaGGCggCUGGUAau -5'
26708 3' -54.4 NC_005808.1 + 18941 0.66 0.609508
Target:  5'- gGUC-GCCUggugcaguUGCUgccgCCGCCGGCUAc-- -3'
miRNA:   3'- -CAGuCGGA--------ACGAa---GGCGGCUGGUaau -5'
26708 3' -54.4 NC_005808.1 + 23008 0.67 0.598043
Target:  5'- gGUCGGCCUgcUGCUg-CGCCuGCUGUUGg -3'
miRNA:   3'- -CAGUCGGA--ACGAagGCGGcUGGUAAU- -5'
26708 3' -54.4 NC_005808.1 + 32542 0.67 0.58661
Target:  5'- -cCGGCCaggaUGCUgCCGCCGGCgAUg- -3'
miRNA:   3'- caGUCGGa---ACGAaGGCGGCUGgUAau -5'
26708 3' -54.4 NC_005808.1 + 16915 0.67 0.58661
Target:  5'- -gCAGCgUUGCcgaaaUCCGCCGGCUg--- -3'
miRNA:   3'- caGUCGgAACGa----AGGCGGCUGGuaau -5'
26708 3' -54.4 NC_005808.1 + 14133 0.67 0.575219
Target:  5'- cGUCGGCCagcgGCUUgCCuuCCGGCCGUUc -3'
miRNA:   3'- -CAGUCGGaa--CGAA-GGc-GGCUGGUAAu -5'
26708 3' -54.4 NC_005808.1 + 4009 0.67 0.562748
Target:  5'- gGUCAGuCCUUccgauagcgauagGCUUCaaaGCCGGCCGc-- -3'
miRNA:   3'- -CAGUC-GGAA-------------CGAAGg--CGGCUGGUaau -5'
26708 3' -54.4 NC_005808.1 + 4341 0.68 0.541387
Target:  5'- -cCAGCCUUGa---UGCUGGCCGUUGc -3'
miRNA:   3'- caGUCGGAACgaagGCGGCUGGUAAU- -5'
26708 3' -54.4 NC_005808.1 + 732 0.68 0.530253
Target:  5'- -gCGGCUUUGCcgacaaCGCCGGCCAg-- -3'
miRNA:   3'- caGUCGGAACGaag---GCGGCUGGUaau -5'
26708 3' -54.4 NC_005808.1 + 41558 0.68 0.508246
Target:  5'- -gCGGCgacaUGCUgCCGCCGGCCGUg- -3'
miRNA:   3'- caGUCGga--ACGAaGGCGGCUGGUAau -5'
26708 3' -54.4 NC_005808.1 + 14618 0.68 0.497387
Target:  5'- cGUCGGCUUccaUGCUUCCGgCG-CCGg-- -3'
miRNA:   3'- -CAGUCGGA---ACGAAGGCgGCuGGUaau -5'
26708 3' -54.4 NC_005808.1 + 41130 0.68 0.486634
Target:  5'- -cCGGCC-UGCcaggaggCCGCCGACCGc-- -3'
miRNA:   3'- caGUCGGaACGaa-----GGCGGCUGGUaau -5'
26708 3' -54.4 NC_005808.1 + 41241 0.69 0.455064
Target:  5'- gGUC-GCCggaUGCgcaaggCCGCCGACCAc-- -3'
miRNA:   3'- -CAGuCGGa--ACGaa----GGCGGCUGGUaau -5'
26708 3' -54.4 NC_005808.1 + 25526 0.7 0.395454
Target:  5'- gGUCGGUUUUGCcgCCGCCGGCa---- -3'
miRNA:   3'- -CAGUCGGAACGaaGGCGGCUGguaau -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.