miRNA display CGI


Results 1 - 20 of 47 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
11971 3' -55.8 NC_003278.1 + 19613 0.66 0.559409
Target:  5'- cCUGCGcGCGCAGauCCAGgCGGccaauGGCGCc -3'
miRNA:   3'- aGAUGC-CGCGUC--GGUU-GUCu----UCGCGc -5'
11971 3' -55.8 NC_003278.1 + 6505 0.66 0.559409
Target:  5'- -gUACGGCugGUAGaCCGGCAGcagcucgaccuuGAGCGCu -3'
miRNA:   3'- agAUGCCG--CGUC-GGUUGUC------------UUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 26660 0.66 0.559409
Target:  5'- --gGCGGCGCAuucgcguccGCCAGgGuAGGCGCc -3'
miRNA:   3'- agaUGCCGCGU---------CGGUUgUcUUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 28029 0.66 0.559409
Target:  5'- --gGCGGCGCAGCaCGuCGGccuuGAGCucGCGg -3'
miRNA:   3'- agaUGCCGCGUCG-GUuGUC----UUCG--CGC- -5'
11971 3' -55.8 NC_003278.1 + 2170 0.66 0.556057
Target:  5'- --gGCGGUGCgggaugaaggucuuGGCCAGCAuGuuGCGCu -3'
miRNA:   3'- agaUGCCGCG--------------UCGGUUGU-CuuCGCGc -5'
11971 3' -55.8 NC_003278.1 + 13186 0.66 0.548258
Target:  5'- --gACGGUGCAgGCCGcccagggcaACGGcAGCGCc -3'
miRNA:   3'- agaUGCCGCGU-CGGU---------UGUCuUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 9078 0.66 0.547147
Target:  5'- cUCgGCGGUGCcGCCGGCAuagccgcccgggcGAggguucaccAGCGCGg -3'
miRNA:   3'- -AGaUGCCGCGuCGGUUGU-------------CU---------UCGCGC- -5'
11971 3' -55.8 NC_003278.1 + 17631 0.66 0.537178
Target:  5'- gUCaACGGCGUGaCCGGCAucAGCGCc -3'
miRNA:   3'- -AGaUGCCGCGUcGGUUGUcuUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 6028 0.66 0.537178
Target:  5'- --gGCGGCcuGCcGCCggUGGAAGUGCc -3'
miRNA:   3'- agaUGCCG--CGuCGGuuGUCUUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 6471 0.66 0.526177
Target:  5'- aUUUcCGGCGUgcugcaGGCCGGCAaGGGCGCc -3'
miRNA:   3'- -AGAuGCCGCG------UCGGUUGUcUUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 19796 0.66 0.515261
Target:  5'- ---cCGGUGcCGGCCAgcGCGGcAGCGCu -3'
miRNA:   3'- agauGCCGC-GUCGGU--UGUCuUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 29213 0.66 0.514175
Target:  5'- --cGCGGCG--GCCAGCgaguucaAGAAGCGCc -3'
miRNA:   3'- agaUGCCGCguCGGUUG-------UCUUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 23237 0.67 0.504438
Target:  5'- aCU-CGGCGCGGgCGGCGcgcaGGGCGCu -3'
miRNA:   3'- aGAuGCCGCGUCgGUUGUc---UUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 16737 0.67 0.504438
Target:  5'- gCUGCaGGCGUAccgccGCCAACu---GCGCGa -3'
miRNA:   3'- aGAUG-CCGCGU-----CGGUUGucuuCGCGC- -5'
11971 3' -55.8 NC_003278.1 + 14783 0.67 0.501211
Target:  5'- gCUACGGCaucacggacgcacuGCAuGCCAGC-GAGGCGg- -3'
miRNA:   3'- aGAUGCCG--------------CGU-CGGUUGuCUUCGCgc -5'
11971 3' -55.8 NC_003278.1 + 1481 0.67 0.493715
Target:  5'- gCUGCaGGCGC-GUCuGCAuuGGCGCGa -3'
miRNA:   3'- aGAUG-CCGCGuCGGuUGUcuUCGCGC- -5'
11971 3' -55.8 NC_003278.1 + 10000 0.67 0.493715
Target:  5'- ---cCGGCacgGCGGCgAGCAGAuGCGCu -3'
miRNA:   3'- agauGCCG---CGUCGgUUGUCUuCGCGc -5'
11971 3' -55.8 NC_003278.1 + 19660 0.67 0.483097
Target:  5'- --cGCaGCGCuuacgcaaccucAGCCAgcaGCAGGAGCGCc -3'
miRNA:   3'- agaUGcCGCG------------UCGGU---UGUCUUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 33908 0.67 0.483097
Target:  5'- --gGCuGGUGUAGCCG-CGGAAGcCGCu -3'
miRNA:   3'- agaUG-CCGCGUCGGUuGUCUUC-GCGc -5'
11971 3' -55.8 NC_003278.1 + 19445 0.67 0.483097
Target:  5'- cCUGuuGCGCGGCCAGCGc-GGUGCu -3'
miRNA:   3'- aGAUgcCGCGUCGGUUGUcuUCGCGc -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.