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 + 1481 0.67 0.493715
Target:  5'- gCUGCaGGCGC-GUCuGCAuuGGCGCGa -3'
miRNA:   3'- aGAUG-CCGCGuCGGuUGUcuUCGCGC- -5'
11971 3' -55.8 NC_003278.1 + 1640 0.67 0.471546
Target:  5'- cCUGCGGgucuaucCGCAGCUGAUGGggGUGg- -3'
miRNA:   3'- aGAUGCC-------GCGUCGGUUGUCuuCGCgc -5'
11971 3' -55.8 NC_003278.1 + 2035 0.67 0.451931
Target:  5'- --cGCGGCGCauguacuuGGCCAGCGGcgccuGCaGCGg -3'
miRNA:   3'- agaUGCCGCG--------UCGGUUGUCuu---CG-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 + 3631 0.67 0.451931
Target:  5'- gCUugGGCcuuGCuGGCCGACAGGAauaucugguuGCGCc -3'
miRNA:   3'- aGAugCCG---CG-UCGGUUGUCUU----------CGCGc -5'
11971 3' -55.8 NC_003278.1 + 4356 0.68 0.392159
Target:  5'- --cGCGcGCGCGGCCcagcaaucaAGCGGGauuguagGGCGCGg -3'
miRNA:   3'- agaUGC-CGCGUCGG---------UUGUCU-------UCGCGC- -5'
11971 3' -55.8 NC_003278.1 + 5744 0.69 0.383784
Target:  5'- --gGCGGCGCGGUUggUGGuAGcCGCGg -3'
miRNA:   3'- agaUGCCGCGUCGGuuGUCuUC-GCGC- -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 + 6505 0.66 0.559409
Target:  5'- -gUACGGCugGUAGaCCGGCAGcagcucgaccuuGAGCGCu -3'
miRNA:   3'- agAUGCCG--CGUC-GGUUGUC------------UUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 6687 0.74 0.169212
Target:  5'- cUCUuCGGCgaugacGCAGCCGGCGGuacGCGCGa -3'
miRNA:   3'- -AGAuGCCG------CGUCGGUUGUCuu-CGCGC- -5'
11971 3' -55.8 NC_003278.1 + 7775 0.68 0.393096
Target:  5'- aCUACGGuCGCAccGCCGGCGugaccGAGGCGg- -3'
miRNA:   3'- aGAUGCC-GCGU--CGGUUGU-----CUUCGCgc -5'
11971 3' -55.8 NC_003278.1 + 8444 0.69 0.36471
Target:  5'- gCUGCGGCggaagcgggcgccGCAGCgcuggUAGCAGAccaggcgcAGCGCGg -3'
miRNA:   3'- aGAUGCCG-------------CGUCG-----GUUGUCU--------UCGCGC- -5'
11971 3' -55.8 NC_003278.1 + 8671 0.67 0.451931
Target:  5'- aCUuCGGCGCcGCC-ACcGAGGaCGCGg -3'
miRNA:   3'- aGAuGCCGCGuCGGuUGuCUUC-GCGC- -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 + 10000 0.67 0.493715
Target:  5'- ---cCGGCacgGCGGCgAGCAGAuGCGCu -3'
miRNA:   3'- agauGCCG---CGUCGgUUGUCUuCGCGc -5'
11971 3' -55.8 NC_003278.1 + 10546 1.09 0.000456
Target:  5'- aUCUACGGCGCAGCCAACAGAAGCGCGu -3'
miRNA:   3'- -AGAUGCCGCGUCGGUUGUCUUCGCGC- -5'
11971 3' -55.8 NC_003278.1 + 10593 0.68 0.392159
Target:  5'- --gACGGCaGCgccuaugAGCCAcGCaAGAAGCGCGa -3'
miRNA:   3'- agaUGCCG-CG-------UCGGU-UG-UCUUCGCGC- -5'
11971 3' -55.8 NC_003278.1 + 10864 0.71 0.291345
Target:  5'- gCUGC-GCGUAGCUGACuucGGGAGCGCc -3'
miRNA:   3'- aGAUGcCGCGUCGGUUG---UCUUCGCGc -5'
11971 3' -55.8 NC_003278.1 + 13186 0.66 0.548258
Target:  5'- --gACGGUGCAgGCCGcccagggcaACGGcAGCGCc -3'
miRNA:   3'- agaUGCCGCGU-CGGU---------UGUCuUCGCGc -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.