miRNA display CGI


Results 1 - 20 of 41 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
22734 3' -67.2 NC_005091.1 + 51045 0.66 0.242478
Target:  5'- uCGCUuGCCGAUUUgCCCGUgcgcaCCGCGCUu -3'
miRNA:   3'- -GCGGcCGGCUGGA-GGGCG-----GGCGCGAc -5'
22734 3' -67.2 NC_005091.1 + 49807 0.68 0.172253
Target:  5'- aCGCaCGGCCGACgUgcCCCGCaugcagagcuaCGCGCa- -3'
miRNA:   3'- -GCG-GCCGGCUGgA--GGGCGg----------GCGCGac -5'
22734 3' -67.2 NC_005091.1 + 28206 0.67 0.190228
Target:  5'- aCGCCGGCCGAaaUCCCGUCaCGaaCUu -3'
miRNA:   3'- -GCGGCCGGCUggAGGGCGG-GCgcGAc -5'
22734 3' -67.2 NC_005091.1 + 30890 0.67 0.194972
Target:  5'- aGCaCGuCCGACUUCaaCCGCUCGCGaCUGg -3'
miRNA:   3'- gCG-GCcGGCUGGAG--GGCGGGCGC-GAC- -5'
22734 3' -67.2 NC_005091.1 + 55686 0.67 0.204272
Target:  5'- uGCCGcaucacuucGCCGAUCgccgCCUGCacgagcgcguggaCCGCGCUGa -3'
miRNA:   3'- gCGGC---------CGGCUGGa---GGGCG-------------GGCGCGAC- -5'
22734 3' -67.2 NC_005091.1 + 48809 0.67 0.204772
Target:  5'- aCGCaUGGCCGuAUCUCCguguCGCUCGUGCa- -3'
miRNA:   3'- -GCG-GCCGGC-UGGAGG----GCGGGCGCGac -5'
22734 3' -67.2 NC_005091.1 + 30181 0.72 0.075492
Target:  5'- gGUCGG-CGACUUCgCCGCCCuuaaaGCGCUGg -3'
miRNA:   3'- gCGGCCgGCUGGAG-GGCGGG-----CGCGAC- -5'
22734 3' -67.2 NC_005091.1 + 17952 0.72 0.086114
Target:  5'- uCGCCGGCCGAUCucgcacaggUCCCGgCCGauaGCg- -3'
miRNA:   3'- -GCGGCCGGCUGG---------AGGGCgGGCg--CGac -5'
22734 3' -67.2 NC_005091.1 + 36735 0.69 0.144423
Target:  5'- aCGCUGGCCGAaguCCagCCCGuCCCGUGa-- -3'
miRNA:   3'- -GCGGCCGGCU---GGa-GGGC-GGGCGCgac -5'
22734 3' -67.2 NC_005091.1 + 9329 0.68 0.17398
Target:  5'- uCGCCGGCCGgucgcccuucgcaggGCCgcaCCGCcggaaacaCCGCGCg- -3'
miRNA:   3'- -GCGGCCGGC---------------UGGag-GGCG--------GGCGCGac -5'
22734 3' -67.2 NC_005091.1 + 33589 0.67 0.203275
Target:  5'- aGCCGugaugcggaucgauGCCGGCCUCUCGaCCUaugaGCGCg- -3'
miRNA:   3'- gCGGC--------------CGGCUGGAGGGC-GGG----CGCGac -5'
22734 3' -67.2 NC_005091.1 + 1543 0.66 0.236756
Target:  5'- gGCCGGCCG-CCggaUCGUCCG-GCUu -3'
miRNA:   3'- gCGGCCGGCuGGag-GGCGGGCgCGAc -5'
22734 3' -67.2 NC_005091.1 + 8097 0.69 0.127125
Target:  5'- uGCaGGCCGACCucgaUCCC-CUCGCGCa- -3'
miRNA:   3'- gCGgCCGGCUGG----AGGGcGGGCGCGac -5'
22734 3' -67.2 NC_005091.1 + 53820 0.66 0.231149
Target:  5'- aCGCCGgaauucacguuuGCCGGCUUCaauuuCCCGCGCUa -3'
miRNA:   3'- -GCGGC------------CGGCUGGAGggc--GGGCGCGAc -5'
22734 3' -67.2 NC_005091.1 + 17634 0.67 0.185585
Target:  5'- gGuuGcGUCGACacgCUCCCGgCCGCGCa- -3'
miRNA:   3'- gCggC-CGGCUG---GAGGGCgGGCGCGac -5'
22734 3' -67.2 NC_005091.1 + 38952 0.69 0.126799
Target:  5'- aCGCCGGCUgccgaGACCUaugaacaCCUGUUCGCGCa- -3'
miRNA:   3'- -GCGGCCGG-----CUGGA-------GGGCGGGCGCGac -5'
22734 3' -67.2 NC_005091.1 + 12104 0.66 0.225654
Target:  5'- -aCUGGCCGGCCaUCUgaaCGUCUGCGCg- -3'
miRNA:   3'- gcGGCCGGCUGG-AGG---GCGGGCGCGac -5'
22734 3' -67.2 NC_005091.1 + 31538 0.68 0.159782
Target:  5'- uGCUGGCgUGAUUcagUCCgGCCCGgCGCUGu -3'
miRNA:   3'- gCGGCCG-GCUGG---AGGgCGGGC-GCGAC- -5'
22734 3' -67.2 NC_005091.1 + 11439 0.67 0.181043
Target:  5'- aCGUCGGCCGACgCUUUCGCCuugacgaucCG-GCUGu -3'
miRNA:   3'- -GCGGCCGGCUG-GAGGGCGG---------GCgCGAC- -5'
22734 3' -67.2 NC_005091.1 + 25654 0.67 0.181043
Target:  5'- aGCUGGCCGcgcaguUCUUCCGCCUGCacCUGc -3'
miRNA:   3'- gCGGCCGGCu-----GGAGGGCGGGCGc-GAC- -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.