miRNA display CGI


Results 1 - 20 of 25 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
22274 5' -60.9 NC_005045.1 + 29869 1.1 0.000176
Target:  5'- cAGCGGCCCUCCUCGACCAUGCCACGGg -3'
miRNA:   3'- -UCGCCGGGAGGAGCUGGUACGGUGCC- -5'
22274 5' -60.9 NC_005045.1 + 22337 0.74 0.106482
Target:  5'- cAGCGGCCCUCCUUGcCCAcacgcacGCCGuCGa -3'
miRNA:   3'- -UCGCCGGGAGGAGCuGGUa------CGGU-GCc -5'
22274 5' -60.9 NC_005045.1 + 32413 0.73 0.1326
Target:  5'- cGGCGG-CCUCCUCGGCg--GUCAUGGc -3'
miRNA:   3'- -UCGCCgGGAGGAGCUGguaCGGUGCC- -5'
22274 5' -60.9 NC_005045.1 + 16684 0.72 0.139998
Target:  5'- cAGCGcGCCCUUCUUGGCguacuUGCCGCGu -3'
miRNA:   3'- -UCGC-CGGGAGGAGCUGgu---ACGGUGCc -5'
22274 5' -60.9 NC_005045.1 + 24403 0.72 0.143838
Target:  5'- cGaCGGCCCUuggCCUCGACguUGCCcaggcgauccagGCGGa -3'
miRNA:   3'- uC-GCCGGGA---GGAGCUGguACGG------------UGCC- -5'
22274 5' -60.9 NC_005045.1 + 38841 0.72 0.151807
Target:  5'- uGGCcGUUCUCCUCGGCCuUGUCACcGGa -3'
miRNA:   3'- -UCGcCGGGAGGAGCUGGuACGGUG-CC- -5'
22274 5' -60.9 NC_005045.1 + 13031 0.71 0.164512
Target:  5'- -uCGaGCCUgcaUCaugCGACCGUGCCACGGg -3'
miRNA:   3'- ucGC-CGGG---AGga-GCUGGUACGGUGCC- -5'
22274 5' -60.9 NC_005045.1 + 13581 0.69 0.219576
Target:  5'- cGCaGCCCUUgUUGACCucgGCgGCGGu -3'
miRNA:   3'- uCGcCGGGAGgAGCUGGua-CGgUGCC- -5'
22274 5' -60.9 NC_005045.1 + 33965 0.69 0.225296
Target:  5'- cGGCGucaGCCCggUCCa-GGCCAgggaUGCCACGGa -3'
miRNA:   3'- -UCGC---CGGG--AGGagCUGGU----ACGGUGCC- -5'
22274 5' -60.9 NC_005045.1 + 40334 0.69 0.237113
Target:  5'- gGGCGGCCCuugcgacgcUCC-CGGcCCAUGCCGa-- -3'
miRNA:   3'- -UCGCCGGG---------AGGaGCU-GGUACGGUgcc -5'
22274 5' -60.9 NC_005045.1 + 41809 0.68 0.262301
Target:  5'- aAGCGGCCCUggguUCUggcuacaacgaGACCAaGCUGCGGg -3'
miRNA:   3'- -UCGCCGGGA----GGAg----------CUGGUaCGGUGCC- -5'
22274 5' -60.9 NC_005045.1 + 7121 0.68 0.275692
Target:  5'- -cCGGCUCUCCUgcUGGCCAguucGCCucGCGGu -3'
miRNA:   3'- ucGCCGGGAGGA--GCUGGUa---CGG--UGCC- -5'
22274 5' -60.9 NC_005045.1 + 34180 0.68 0.282589
Target:  5'- cAGuCGGCCCUUgccguaCUUGACgGUGCCcugguCGGa -3'
miRNA:   3'- -UC-GCCGGGAG------GAGCUGgUACGGu----GCC- -5'
22274 5' -60.9 NC_005045.1 + 2368 0.68 0.289623
Target:  5'- cGCGGUUgaUCUCuuCUGUGCCACGGa -3'
miRNA:   3'- uCGCCGGgaGGAGcuGGUACGGUGCC- -5'
22274 5' -60.9 NC_005045.1 + 11475 0.67 0.304101
Target:  5'- cAGCGGUuguucgggucuUCggCUUCGGCCcgGCUGCGGa -3'
miRNA:   3'- -UCGCCG-----------GGa-GGAGCUGGuaCGGUGCC- -5'
22274 5' -60.9 NC_005045.1 + 17903 0.67 0.311546
Target:  5'- cGCGGaccagCCUCCUCGGUCAggGCCACc- -3'
miRNA:   3'- uCGCCg----GGAGGAGCUGGUa-CGGUGcc -5'
22274 5' -60.9 NC_005045.1 + 26873 0.67 0.319128
Target:  5'- aGGCGGCCCg-CUCuGCCcaGCgGCGGu -3'
miRNA:   3'- -UCGCCGGGagGAGcUGGuaCGgUGCC- -5'
22274 5' -60.9 NC_005045.1 + 33893 0.67 0.337888
Target:  5'- gGGCGGCCUcauccaucugagccaUCUUgGACCAguuCCACGa -3'
miRNA:   3'- -UCGCCGGG---------------AGGAgCUGGUac-GGUGCc -5'
22274 5' -60.9 NC_005045.1 + 6258 0.66 0.342701
Target:  5'- cGCcuucGCCCgcucacgagCCUCGGCCucagccuucGCCACGGa -3'
miRNA:   3'- uCGc---CGGGa--------GGAGCUGGua-------CGGUGCC- -5'
22274 5' -60.9 NC_005045.1 + 7208 0.66 0.342701
Target:  5'- cGGCGGCCCgCCUaCGGCgcccgCAUGaCCugGc -3'
miRNA:   3'- -UCGCCGGGaGGA-GCUG-----GUAC-GGugCc -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.