miRNA display CGI


Results 1 - 20 of 40 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
2820 5' -56.7 NC_001491.2 + 120652 1.06 0.003244
Target:  5'- aUAGCCGCACACCGUAACCCAGCCAUGc -3'
miRNA:   3'- -AUCGGCGUGUGGCAUUGGGUCGGUAC- -5'
2820 5' -56.7 NC_001491.2 + 59693 0.72 0.521545
Target:  5'- cUAGCCGCAUcguggcucugaaaaACCccucUGGCCCAGCCAg- -3'
miRNA:   3'- -AUCGGCGUG--------------UGGc---AUUGGGUCGGUac -5'
2820 5' -56.7 NC_001491.2 + 116382 0.71 0.585315
Target:  5'- -cGgUGCGCGCCGUucuggugguGGCCCGGaCCGUGg -3'
miRNA:   3'- auCgGCGUGUGGCA---------UUGGGUC-GGUAC- -5'
2820 5' -56.7 NC_001491.2 + 67477 0.7 0.602827
Target:  5'- -uGCCGCGCacgacGCCGUAGCCCuccaguacgagcgcGGCC-UGg -3'
miRNA:   3'- auCGGCGUG-----UGGCAUUGGG--------------UCGGuAC- -5'
2820 5' -56.7 NC_001491.2 + 140359 0.7 0.616264
Target:  5'- gGGCCGCGCGCaaucaGUGcgcccgaucuCCCGGCCAc- -3'
miRNA:   3'- aUCGGCGUGUGg----CAUu---------GGGUCGGUac -5'
2820 5' -56.7 NC_001491.2 + 118322 0.7 0.626615
Target:  5'- cAGCCgGCGuCcCCGgcACCCAGCCcgGc -3'
miRNA:   3'- aUCGG-CGU-GuGGCauUGGGUCGGuaC- -5'
2820 5' -56.7 NC_001491.2 + 17666 0.7 0.63697
Target:  5'- -cGCCGUACAgCGcGGCCCcGGCCAa- -3'
miRNA:   3'- auCGGCGUGUgGCaUUGGG-UCGGUac -5'
2820 5' -56.7 NC_001491.2 + 15479 0.69 0.667978
Target:  5'- -cGCCGCgcGCGCCGUGAUgCUGGuCCAUGu -3'
miRNA:   3'- auCGGCG--UGUGGCAUUG-GGUC-GGUAC- -5'
2820 5' -56.7 NC_001491.2 + 140166 0.69 0.688516
Target:  5'- -uGCCGCGCuCCGUGggggacuuuGCCgCGGUCGUGc -3'
miRNA:   3'- auCGGCGUGuGGCAU---------UGG-GUCGGUAC- -5'
2820 5' -56.7 NC_001491.2 + 106154 0.69 0.708862
Target:  5'- cGGCCaGaCACGCCaGUGaACgCGGCCAUGg -3'
miRNA:   3'- aUCGG-C-GUGUGG-CAU-UGgGUCGGUAC- -5'
2820 5' -56.7 NC_001491.2 + 124455 0.68 0.722951
Target:  5'- cAGCCGCGCGCaCGUGucugcagaaaACCCcgaagacacccccguGGCCGUu -3'
miRNA:   3'- aUCGGCGUGUG-GCAU----------UGGG---------------UCGGUAc -5'
2820 5' -56.7 NC_001491.2 + 83062 0.68 0.728942
Target:  5'- -cGCCGCGggaaAUCGUAGCCUGGCCc-- -3'
miRNA:   3'- auCGGCGUg---UGGCAUUGGGUCGGuac -5'
2820 5' -56.7 NC_001491.2 + 140086 0.68 0.738858
Target:  5'- gGGCCGCcCGCgGaGGCCUGGCCGc- -3'
miRNA:   3'- aUCGGCGuGUGgCaUUGGGUCGGUac -5'
2820 5' -56.7 NC_001491.2 + 98963 0.68 0.748679
Target:  5'- gAGUCGCAUACCGcGGCuaCCAGCgGUa -3'
miRNA:   3'- aUCGGCGUGUGGCaUUG--GGUCGgUAc -5'
2820 5' -56.7 NC_001491.2 + 49508 0.68 0.748679
Target:  5'- -uGuCCGcCAUACCG-AGgCCGGCCAUGg -3'
miRNA:   3'- auC-GGC-GUGUGGCaUUgGGUCGGUAC- -5'
2820 5' -56.7 NC_001491.2 + 100945 0.68 0.758395
Target:  5'- cGGCgGCAgACgGgaguACCCAGCCcgGu -3'
miRNA:   3'- aUCGgCGUgUGgCau--UGGGUCGGuaC- -5'
2820 5' -56.7 NC_001491.2 + 141583 0.68 0.767997
Target:  5'- gGGCCcuGCGC-CCGU-ACCUGGCCcgGg -3'
miRNA:   3'- aUCGG--CGUGuGGCAuUGGGUCGGuaC- -5'
2820 5' -56.7 NC_001491.2 + 52134 0.68 0.767997
Target:  5'- -uGCCGCACcucACCGUcuacuuuaAGCUC-GCCAUGa -3'
miRNA:   3'- auCGGCGUG---UGGCA--------UUGGGuCGGUAC- -5'
2820 5' -56.7 NC_001491.2 + 120737 0.67 0.78682
Target:  5'- --aCCGUGCcaacuaguggguACCGUGACCCGGCCc-- -3'
miRNA:   3'- aucGGCGUG------------UGGCAUUGGGUCGGuac -5'
2820 5' -56.7 NC_001491.2 + 95204 0.67 0.78682
Target:  5'- -cGCCGCGCGCCGaAGCcaagaaauccaCCAGCUg-- -3'
miRNA:   3'- auCGGCGUGUGGCaUUG-----------GGUCGGuac -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.