miRNA display CGI


Results 1 - 20 of 60 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
11904 3' -57.9 NC_003266.2 + 31579 0.67 0.374175
Target:  5'- gCAGCCCGCCGggGCCu--GCAGUAc -3'
miRNA:   3'- aGUCGGGUGGCggUGGuguUGUCGUc -5'
11904 3' -57.9 NC_003266.2 + 31223 0.67 0.356498
Target:  5'- gUCAacCCCAUCGUCAUCACc-CAGCAGu -3'
miRNA:   3'- -AGUc-GGGUGGCGGUGGUGuuGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 31027 0.66 0.430651
Target:  5'- --cGCCCAacuCCGCauuCGCCA--GCAGCAGg -3'
miRNA:   3'- aguCGGGU---GGCG---GUGGUguUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 30794 0.75 0.103302
Target:  5'- -uGGCUC-CCGCCugaucccgacacaccACCACAGCAGCAGc -3'
miRNA:   3'- agUCGGGuGGCGG---------------UGGUGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 30452 0.66 0.430651
Target:  5'- --cGCCUACCugcGCCACCACcccCAGUAc -3'
miRNA:   3'- aguCGGGUGG---CGGUGGUGuu-GUCGUc -5'
11904 3' -57.9 NC_003266.2 + 29856 0.66 0.420892
Target:  5'- gCAGuCCCACUGCUaguACCAaua-AGCAGa -3'
miRNA:   3'- aGUC-GGGUGGCGG---UGGUguugUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 29802 1.09 0.000266
Target:  5'- cUCAGCCCACCGCCACCACAACAGCAGa -3'
miRNA:   3'- -AGUCGGGUGGCGGUGGUGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 27993 0.73 0.136116
Target:  5'- aUCGGCCUucuCCGUCACUACAGCcGCGc -3'
miRNA:   3'- -AGUCGGGu--GGCGGUGGUGUUGuCGUc -5'
11904 3' -57.9 NC_003266.2 + 26512 0.65 0.448545
Target:  5'- aUUGGCCCGCCGCCcuaguguACCAgGAaauucccCAGCc- -3'
miRNA:   3'- -AGUCGGGUGGCGG-------UGGUgUU-------GUCGuc -5'
11904 3' -57.9 NC_003266.2 + 26223 0.67 0.392437
Target:  5'- gUAGCCCGcgcCCGcCCACaCACGGaaaaaGGCGGg -3'
miRNA:   3'- aGUCGGGU---GGC-GGUG-GUGUUg----UCGUC- -5'
11904 3' -57.9 NC_003266.2 + 26023 0.77 0.069771
Target:  5'- cUCAGUCCACUGCCGCCGCcGCcGCu- -3'
miRNA:   3'- -AGUCGGGUGGCGGUGGUGuUGuCGuc -5'
11904 3' -57.9 NC_003266.2 + 25943 0.66 0.420892
Target:  5'- cCAGCacuagaaaauCCACaGCgGCgGCGGCGGCAGg -3'
miRNA:   3'- aGUCG----------GGUGgCGgUGgUGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 25594 0.67 0.356498
Target:  5'- gUAG-CCGCCGCCGCCAgAccgucguccuCGGCGGa -3'
miRNA:   3'- aGUCgGGUGGCGGUGGUgUu---------GUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 25011 0.66 0.401783
Target:  5'- -gAGUgCCACUGCCGCUGCAACcucuGCAc -3'
miRNA:   3'- agUCG-GGUGGCGGUGGUGUUGu---CGUc -5'
11904 3' -57.9 NC_003266.2 + 24551 0.7 0.236634
Target:  5'- -aGGCCCGCCGCgACUACAuCcGCGa -3'
miRNA:   3'- agUCGGGUGGCGgUGGUGUuGuCGUc -5'
11904 3' -57.9 NC_003266.2 + 23350 0.76 0.090887
Target:  5'- aUCuGCCCccACCGCCgACaagaaGCAGCAGCAGa -3'
miRNA:   3'- -AGuCGGG--UGGCGG-UGg----UGUUGUCGUC- -5'
11904 3' -57.9 NC_003266.2 + 23254 0.69 0.291787
Target:  5'- cCAGCCaC-CCGCCggGCCGCGAgAGCc- -3'
miRNA:   3'- aGUCGG-GuGGCGG--UGGUGUUgUCGuc -5'
11904 3' -57.9 NC_003266.2 + 23122 0.84 0.023012
Target:  5'- cUCAGgaacaaCCACCGCCGCCGCAGCAGCc- -3'
miRNA:   3'- -AGUCg-----GGUGGCGGUGGUGUUGUCGuc -5'
11904 3' -57.9 NC_003266.2 + 20957 0.68 0.3311
Target:  5'- cCAGUgCACCaGCC-CCACcGCGGCGu -3'
miRNA:   3'- aGUCGgGUGG-CGGuGGUGuUGUCGUc -5'
11904 3' -57.9 NC_003266.2 + 20696 0.67 0.374175
Target:  5'- cCAGCCCuaccCCGCCAacuaccccuacCCGCucauCGGCAa -3'
miRNA:   3'- aGUCGGGu---GGCGGU-----------GGUGuu--GUCGUc -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.