miRNA display CGI


Results 1 - 15 of 15 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
16947 3' -57.5 NC_004313.1 + 38293 0.66 0.492885
Target:  5'- ---cGCCGCCcgCGuGGAUAauGCAGCCc -3'
miRNA:   3'- gcguCGGCGGuaGU-CCUGU--UGUCGGu -5'
16947 3' -57.5 NC_004313.1 + 12805 0.66 0.460846
Target:  5'- aGCAGCCGCgugauguaccuggUGUcCGGGGCGuaaauCAGCCu -3'
miRNA:   3'- gCGUCGGCG-------------GUA-GUCCUGUu----GUCGGu -5'
16947 3' -57.5 NC_004313.1 + 6829 0.67 0.403104
Target:  5'- uCGCGG-CG-CAUCAGGcgGCAGCGGCUg -3'
miRNA:   3'- -GCGUCgGCgGUAGUCC--UGUUGUCGGu -5'
16947 3' -57.5 NC_004313.1 + 12437 0.67 0.393779
Target:  5'- uGCAGCCuCCAUgCuGGGCGAUguuGCCGa -3'
miRNA:   3'- gCGUCGGcGGUA-GuCCUGUUGu--CGGU- -5'
16947 3' -57.5 NC_004313.1 + 10303 0.67 0.392854
Target:  5'- uGCAauucccuccGCCGCCAUCGGuaacuguGugGACAGCg- -3'
miRNA:   3'- gCGU---------CGGCGGUAGUC-------CugUUGUCGgu -5'
16947 3' -57.5 NC_004313.1 + 1201 0.68 0.384595
Target:  5'- cCGaCAGCCGCUgAUguGGGCAAUAaCCAc -3'
miRNA:   3'- -GC-GUCGGCGG-UAguCCUGUUGUcGGU- -5'
16947 3' -57.5 NC_004313.1 + 28697 0.68 0.384595
Target:  5'- aGCAGaaGCCAUCGGcGugGAU-GCCGc -3'
miRNA:   3'- gCGUCggCGGUAGUC-CugUUGuCGGU- -5'
16947 3' -57.5 NC_004313.1 + 17493 0.7 0.285856
Target:  5'- uCGCugauuGCCGCCuguUCAGGugAAcCAGCg- -3'
miRNA:   3'- -GCGu----CGGCGGu--AGUCCugUU-GUCGgu -5'
16947 3' -57.5 NC_004313.1 + 21701 0.7 0.2577
Target:  5'- aCGCAacGCCaGCCGUCAGGGCugcaauggaAAUAGCUu -3'
miRNA:   3'- -GCGU--CGG-CGGUAGUCCUG---------UUGUCGGu -5'
16947 3' -57.5 NC_004313.1 + 37237 0.71 0.231852
Target:  5'- gCGCAGaaaCCGCCGUCAGGGuCAgggaaccacACAGCa- -3'
miRNA:   3'- -GCGUC---GGCGGUAGUCCU-GU---------UGUCGgu -5'
16947 3' -57.5 NC_004313.1 + 19656 0.71 0.219767
Target:  5'- uGCAGCCaccuCCAgguugCAGGugAugGCAGCCAu -3'
miRNA:   3'- gCGUCGGc---GGUa----GUCCugU--UGUCGGU- -5'
16947 3' -57.5 NC_004313.1 + 33446 0.72 0.202651
Target:  5'- aCGCAGgaGUCugggAGGACGACAGCCAg -3'
miRNA:   3'- -GCGUCggCGGuag-UCCUGUUGUCGGU- -5'
16947 3' -57.5 NC_004313.1 + 10962 0.73 0.181639
Target:  5'- uGCaucgAGCCGCCAUauuccuGGGCAuCAGCCAc -3'
miRNA:   3'- gCG----UCGGCGGUAgu----CCUGUuGUCGGU- -5'
16947 3' -57.5 NC_004313.1 + 13638 0.74 0.145338
Target:  5'- gGCAGCCGCCGUUAuuGaGGCu-CAGCCGg -3'
miRNA:   3'- gCGUCGGCGGUAGU--C-CUGuuGUCGGU- -5'
16947 3' -57.5 NC_004313.1 + 12745 1.08 0.000398
Target:  5'- uCGCAGCCGCCAUCAGGACAACAGCCAu -3'
miRNA:   3'- -GCGUCGGCGGUAGUCCUGUUGUCGGU- -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.