miRNA display CGI


Results 1 - 20 of 46 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
28806 3' -56.8 NC_006146.1 + 3148 0.66 0.868542
Target:  5'- cGCGCCcacccggccCCUGCGCC-Cu-GAUCGAGc -3'
miRNA:   3'- aCGCGGc--------GGACGCGGuGuuCUAGUUU- -5'
28806 3' -56.8 NC_006146.1 + 11523 0.69 0.705879
Target:  5'- aGCGCgGCCUGCGagCugGcGGUCAGc -3'
miRNA:   3'- aCGCGgCGGACGCg-GugUuCUAGUUu -5'
28806 3' -56.8 NC_006146.1 + 17555 0.68 0.755443
Target:  5'- -uUGCCuaugacucCCUGCGCCGCcAGAUCAAu -3'
miRNA:   3'- acGCGGc-------GGACGCGGUGuUCUAGUUu -5'
28806 3' -56.8 NC_006146.1 + 23735 0.79 0.218684
Target:  5'- gGCGCCgGUCUGCGCCGCcgccGGGUCAAc -3'
miRNA:   3'- aCGCGG-CGGACGCGGUGu---UCUAGUUu -5'
28806 3' -56.8 NC_006146.1 + 24087 0.69 0.675302
Target:  5'- gGCGCgGCCU-CGCCugGgacgcGGGUCGAGg -3'
miRNA:   3'- aCGCGgCGGAcGCGGugU-----UCUAGUUU- -5'
28806 3' -56.8 NC_006146.1 + 38256 0.66 0.868542
Target:  5'- gGCGCCGUgUGUGCCugGAacAUCu-- -3'
miRNA:   3'- aCGCGGCGgACGCGGugUUc-UAGuuu -5'
28806 3' -56.8 NC_006146.1 + 40986 0.68 0.765061
Target:  5'- gGUGCCGCgCcgGCGCCcCAGGGcgCAGAg -3'
miRNA:   3'- aCGCGGCG-Ga-CGCGGuGUUCUa-GUUU- -5'
28806 3' -56.8 NC_006146.1 + 42371 0.68 0.759304
Target:  5'- cGCGCCGCCagggugggcgagggGCGCCcCAGGGcCAc- -3'
miRNA:   3'- aCGCGGCGGa-------------CGCGGuGUUCUaGUuu -5'
28806 3' -56.8 NC_006146.1 + 42446 0.68 0.765061
Target:  5'- cGCGCCGCCaGCaugGCgGCcGGGUCGu- -3'
miRNA:   3'- aCGCGGCGGaCG---CGgUGuUCUAGUuu -5'
28806 3' -56.8 NC_006146.1 + 47218 0.68 0.768875
Target:  5'- cUG-GCCGCCUcCGCCACGaucuugagcuggcgcGGGUCGAc -3'
miRNA:   3'- -ACgCGGCGGAcGCGGUGU---------------UCUAGUUu -5'
28806 3' -56.8 NC_006146.1 + 48883 0.68 0.735884
Target:  5'- gGCGCCagGCCUGCGCCucuucugucucaGCu-GAUCGu- -3'
miRNA:   3'- aCGCGG--CGGACGCGG------------UGuuCUAGUuu -5'
28806 3' -56.8 NC_006146.1 + 50147 0.69 0.695738
Target:  5'- gGCGCCGCCaGCGCUcgucgucCAGGAcCAGGg -3'
miRNA:   3'- aCGCGGCGGaCGCGGu------GUUCUaGUUU- -5'
28806 3' -56.8 NC_006146.1 + 50309 0.7 0.634067
Target:  5'- gGCGCCGCC-GgGCCuuguCcAGGUCAAAc -3'
miRNA:   3'- aCGCGGCGGaCgCGGu---GuUCUAGUUU- -5'
28806 3' -56.8 NC_006146.1 + 51574 0.67 0.783926
Target:  5'- gGCGCCGCCgggagGgGCC-CGGGGgagcCAGAg -3'
miRNA:   3'- aCGCGGCGGa----CgCGGuGUUCUa---GUUU- -5'
28806 3' -56.8 NC_006146.1 + 54400 0.7 0.627867
Target:  5'- gGUGCCGCCUccucGCGCCGCuccuccgcgguggagAGGGUCu-- -3'
miRNA:   3'- aCGCGGCGGA----CGCGGUG---------------UUCUAGuuu -5'
28806 3' -56.8 NC_006146.1 + 55554 0.66 0.836904
Target:  5'- cGCGCUGCCUGUGUaguuuccuGCGAGAa---- -3'
miRNA:   3'- aCGCGGCGGACGCGg-------UGUUCUaguuu -5'
28806 3' -56.8 NC_006146.1 + 56322 0.71 0.572317
Target:  5'- --gGCCGUagCUGCGCCGCGAGAagGAGg -3'
miRNA:   3'- acgCGGCG--GACGCGGUGUUCUagUUU- -5'
28806 3' -56.8 NC_006146.1 + 56498 0.68 0.735884
Target:  5'- aGCGCgCGCagucGgGCCGCGGGGUCGu- -3'
miRNA:   3'- aCGCG-GCGga--CgCGGUGUUCUAGUuu -5'
28806 3' -56.8 NC_006146.1 + 57939 0.66 0.853131
Target:  5'- gGCGCCGCCaugGUGCUGCA---UCAc- -3'
miRNA:   3'- aCGCGGCGGa--CGCGGUGUucuAGUuu -5'
28806 3' -56.8 NC_006146.1 + 60014 0.69 0.715957
Target:  5'- cGCGgccccguccCCGCCUGCGCC-CGAGccCGAGa -3'
miRNA:   3'- aCGC---------GGCGGACGCGGuGUUCuaGUUU- -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.