miRNA display CGI


Results 1 - 20 of 33 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
28116 5' -56.8 NC_005887.1 + 1475 0.68 0.415269
Target:  5'- gCCCgACGCCGACGgcgugcGGCGCucGCg--- -3'
miRNA:   3'- -GGG-UGUGGCUGCa-----CCGCGuuCGacau -5'
28116 5' -56.8 NC_005887.1 + 3717 0.71 0.274296
Target:  5'- gCCgCGCGCCGACcgcgauccGCGCAAGCUGg- -3'
miRNA:   3'- -GG-GUGUGGCUGcac-----CGCGUUCGACau -5'
28116 5' -56.8 NC_005887.1 + 5142 0.7 0.319226
Target:  5'- aCCGCGcugcCCGACGUcGGCGCGccGCUGa- -3'
miRNA:   3'- gGGUGU----GGCUGCA-CCGCGUu-CGACau -5'
28116 5' -56.8 NC_005887.1 + 6309 1.08 0.00057
Target:  5'- gCCCACACCGACGUGGCGCAAGCUGUAc -3'
miRNA:   3'- -GGGUGUGGCUGCACCGCGUUCGACAU- -5'
28116 5' -56.8 NC_005887.1 + 6807 0.71 0.287952
Target:  5'- cCUCACGCUGcgcgacuggcgcuACGUGGCGCGGGuCUGc- -3'
miRNA:   3'- -GGGUGUGGC-------------UGCACCGCGUUC-GACau -5'
28116 5' -56.8 NC_005887.1 + 8209 0.75 0.156082
Target:  5'- cCCgCGCACCGACac-GCGCGGGCUGUu -3'
miRNA:   3'- -GG-GUGUGGCUGcacCGCGUUCGACAu -5'
28116 5' -56.8 NC_005887.1 + 10103 0.66 0.516393
Target:  5'- gCCCGCGCCGACGgccaGCugaucGGCUGc- -3'
miRNA:   3'- -GGGUGUGGCUGCaccgCGu----UCGACau -5'
28116 5' -56.8 NC_005887.1 + 10222 0.66 0.570572
Target:  5'- gCCCGCGCCGGac-GGCGCGucugaugacCUGUGg -3'
miRNA:   3'- -GGGUGUGGCUgcaCCGCGUuc-------GACAU- -5'
28116 5' -56.8 NC_005887.1 + 11071 0.71 0.28649
Target:  5'- uUCCGCGCCGcuGCucaaacgauuccgcGUGGCGCAucGGCUGg- -3'
miRNA:   3'- -GGGUGUGGC--UG--------------CACCGCGU--UCGACau -5'
28116 5' -56.8 NC_005887.1 + 13201 0.67 0.484886
Target:  5'- gCCGCcgGCCGACGUGuGuCGCu-GCUGa- -3'
miRNA:   3'- gGGUG--UGGCUGCAC-C-GCGuuCGACau -5'
28116 5' -56.8 NC_005887.1 + 13448 0.68 0.444373
Target:  5'- gCCGCGCCGGCcuucaGCGCGAGCg--- -3'
miRNA:   3'- gGGUGUGGCUGcac--CGCGUUCGacau -5'
28116 5' -56.8 NC_005887.1 + 15711 0.68 0.405831
Target:  5'- uUCCGcCGCCGGCGUGaaggagcugacGCGCcAGCUGc- -3'
miRNA:   3'- -GGGU-GUGGCUGCAC-----------CGCGuUCGACau -5'
28116 5' -56.8 NC_005887.1 + 18247 0.67 0.49529
Target:  5'- gCCACGCCGGgcacCGUcacGG-GCGAGCUGa- -3'
miRNA:   3'- gGGUGUGGCU----GCA---CCgCGUUCGACau -5'
28116 5' -56.8 NC_005887.1 + 19499 0.69 0.360721
Target:  5'- uCCCgAUGCCGGCGagcaucGGCGCAGGCg--- -3'
miRNA:   3'- -GGG-UGUGGCUGCa-----CCGCGUUCGacau -5'
28116 5' -56.8 NC_005887.1 + 20970 0.72 0.230881
Target:  5'- uCCCGCGCUGGCGcuUGGCGcCAcgcucgcaccuauucAGCUGUu -3'
miRNA:   3'- -GGGUGUGGCUGC--ACCGC-GU---------------UCGACAu -5'
28116 5' -56.8 NC_005887.1 + 22842 0.66 0.559601
Target:  5'- gCCGCGCCGGCGUcGaGCcaacgaGCAcGUUGUAg -3'
miRNA:   3'- gGGUGUGGCUGCA-C-CG------CGUuCGACAU- -5'
28116 5' -56.8 NC_005887.1 + 23226 0.71 0.274296
Target:  5'- gCCACGCCGACGgcaCGCGAGCg--- -3'
miRNA:   3'- gGGUGUGGCUGCaccGCGUUCGacau -5'
28116 5' -56.8 NC_005887.1 + 23367 0.68 0.40583
Target:  5'- gCCGCAgugCGGCGUuguucuucGGCGCGGGCUGc- -3'
miRNA:   3'- gGGUGUg--GCUGCA--------CCGCGUUCGACau -5'
28116 5' -56.8 NC_005887.1 + 23517 0.69 0.369459
Target:  5'- gCCGCGCUGACGaacGCGCGggugAGCUGg- -3'
miRNA:   3'- gGGUGUGGCUGCac-CGCGU----UCGACau -5'
28116 5' -56.8 NC_005887.1 + 25080 0.75 0.143547
Target:  5'- -gCugGCCGGCGgccgccGGCGCGAGCUGa- -3'
miRNA:   3'- ggGugUGGCUGCa-----CCGCGUUCGACau -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.