miRNA display CGI


Results 1 - 18 of 18 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
9490 3' -55.1 NC_002531.1 + 38428 0.66 0.917918
Target:  5'- uGCUCGGGca-AUCGGCGugUgCUGCCc -3'
miRNA:   3'- -CGAGUUCcagUAGUCGUugGgGGCGG- -5'
9490 3' -55.1 NC_002531.1 + 65325 0.66 0.917918
Target:  5'- aGCUCAAGGUg--CAGUAugCCUCa-- -3'
miRNA:   3'- -CGAGUUCCAguaGUCGUugGGGGcgg -5'
9490 3' -55.1 NC_002531.1 + 121285 0.66 0.912003
Target:  5'- aGCU-GGGGUCuAUCAGCGugGCCaggugCCgGCCg -3'
miRNA:   3'- -CGAgUUCCAG-UAGUCGU--UGG-----GGgCGG- -5'
9490 3' -55.1 NC_002531.1 + 53968 0.66 0.892804
Target:  5'- cGCUCcuccaguggaaGAGGUgaacCAUCcacccguggAGCuGCCCCCGCg -3'
miRNA:   3'- -CGAG-----------UUCCA----GUAG---------UCGuUGGGGGCGg -5'
9490 3' -55.1 NC_002531.1 + 12392 0.67 0.874452
Target:  5'- uGUUUGAGGauggguccccggccuUUAcCGGC-GCCCCCGCCu -3'
miRNA:   3'- -CGAGUUCC---------------AGUaGUCGuUGGGGGCGG- -5'
9490 3' -55.1 NC_002531.1 + 102776 0.67 0.856172
Target:  5'- gGCUCucgagccaaauGGG-CAgcCGGCAACUUCCGCCu -3'
miRNA:   3'- -CGAGu----------UCCaGUa-GUCGUUGGGGGCGG- -5'
9490 3' -55.1 NC_002531.1 + 14487 0.67 0.856172
Target:  5'- ---uGAGGUCAgcaCAGcCAGCCCCCagGCUu -3'
miRNA:   3'- cgagUUCCAGUa--GUC-GUUGGGGG--CGG- -5'
9490 3' -55.1 NC_002531.1 + 122987 0.68 0.848195
Target:  5'- aGCUCAAGGcCAU--GCuccGCgCCUGCCg -3'
miRNA:   3'- -CGAGUUCCaGUAguCGu--UGgGGGCGG- -5'
9490 3' -55.1 NC_002531.1 + 34866 0.68 0.831644
Target:  5'- --gCGGGGuUCAUCAGCAauaggaucucuACCCugaagcuagaCCGCCa -3'
miRNA:   3'- cgaGUUCC-AGUAGUCGU-----------UGGG----------GGCGG- -5'
9490 3' -55.1 NC_002531.1 + 53182 0.68 0.823085
Target:  5'- cGCUguGcaGUCAaCAGCGuaaguuuuggaaACCCCCGCCc -3'
miRNA:   3'- -CGAguUc-CAGUaGUCGU------------UGGGGGCGG- -5'
9490 3' -55.1 NC_002531.1 + 38668 0.68 0.823085
Target:  5'- -gUCuGGGUCG-CAcCAACCCCCGUg -3'
miRNA:   3'- cgAGuUCCAGUaGUcGUUGGGGGCGg -5'
9490 3' -55.1 NC_002531.1 + 122343 0.69 0.787144
Target:  5'- --gUAAGauaGUCuuUCAGCAGCCCCUGUCu -3'
miRNA:   3'- cgaGUUC---CAGu-AGUCGUUGGGGGCGG- -5'
9490 3' -55.1 NC_002531.1 + 80699 0.69 0.768277
Target:  5'- aGC-CAAGGgCcUCAGCAucACCCCCuGCa -3'
miRNA:   3'- -CGaGUUCCaGuAGUCGU--UGGGGG-CGg -5'
9490 3' -55.1 NC_002531.1 + 107814 0.7 0.739064
Target:  5'- aGCUCAGGGa-AUCAGCA--UCCUGCUg -3'
miRNA:   3'- -CGAGUUCCagUAGUCGUugGGGGCGG- -5'
9490 3' -55.1 NC_002531.1 + 47408 0.71 0.688584
Target:  5'- cCUgAAGGcCGccucuUCGGCAGCCaCCCGCUc -3'
miRNA:   3'- cGAgUUCCaGU-----AGUCGUUGG-GGGCGG- -5'
9490 3' -55.1 NC_002531.1 + 50591 0.71 0.667988
Target:  5'- gGCggagUAGGGUaGUCAGCAGCCUaacacaCGCCc -3'
miRNA:   3'- -CGa---GUUCCAgUAGUCGUUGGGg-----GCGG- -5'
9490 3' -55.1 NC_002531.1 + 125802 0.72 0.585092
Target:  5'- aGUUUGAaGUCAUCAGCAacucuguagaaGCCCCCgaGCCu -3'
miRNA:   3'- -CGAGUUcCAGUAGUCGU-----------UGGGGG--CGG- -5'
9490 3' -55.1 NC_002531.1 + 57205 1.13 0.00149
Target:  5'- uGCUCAAGGUCAUCAGCAACCCCCGCCu -3'
miRNA:   3'- -CGAGUUCCAGUAGUCGUUGGGGGCGG- -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.