miRNA display CGI


Results 1 - 20 of 32 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
28039 3' -56.1 NC_005887.1 + 40950 0.66 0.611019
Target:  5'- gCCgcUGCCGAgcGGGCCcaugaugaacGAGCGCGAc -3'
miRNA:   3'- -GGaaGCGGCUacUUCGG----------CUCGCGCUa -5'
28039 3' -56.1 NC_005887.1 + 7397 0.66 0.611019
Target:  5'- aCCUgcgcacgccCGCCGAguucGAAGCCG-GCGaCGGc -3'
miRNA:   3'- -GGAa--------GCGGCUa---CUUCGGCuCGC-GCUa -5'
28039 3' -56.1 NC_005887.1 + 27755 0.66 0.611019
Target:  5'- --gUgGCCGAU---GCCGAGCGCGc- -3'
miRNA:   3'- ggaAgCGGCUAcuuCGGCUCGCGCua -5'
28039 3' -56.1 NC_005887.1 + 26776 0.66 0.599887
Target:  5'- gCUUCGgCGAUcagcGAA-UCGAGCGCGGUc -3'
miRNA:   3'- gGAAGCgGCUA----CUUcGGCUCGCGCUA- -5'
28039 3' -56.1 NC_005887.1 + 30866 0.66 0.588784
Target:  5'- ---gCGCUGGuccUGAuGCCaGAGCGCGAg -3'
miRNA:   3'- ggaaGCGGCU---ACUuCGG-CUCGCGCUa -5'
28039 3' -56.1 NC_005887.1 + 32227 0.67 0.552455
Target:  5'- uUCUUCGUCGuacGUGcAGCCGAucagcuggccgucgGCGCGGg -3'
miRNA:   3'- -GGAAGCGGC---UACuUCGGCU--------------CGCGCUa -5'
28039 3' -56.1 NC_005887.1 + 34375 0.67 0.54483
Target:  5'- cCCcgCGUaucaGAgUGcGGCCGGGCGCGAg -3'
miRNA:   3'- -GGaaGCGg---CU-ACuUCGGCUCGCGCUa -5'
28039 3' -56.1 NC_005887.1 + 36690 0.67 0.533997
Target:  5'- gCCUUCGCCGGUGccGCaugcuucgcuuCGAGCucGCGu- -3'
miRNA:   3'- -GGAAGCGGCUACuuCG-----------GCUCG--CGCua -5'
28039 3' -56.1 NC_005887.1 + 5156 0.67 0.533997
Target:  5'- aUCUaCGCCGAgcUGAAggacGCCGAGC-CGAc -3'
miRNA:   3'- -GGAaGCGGCU--ACUU----CGGCUCGcGCUa -5'
28039 3' -56.1 NC_005887.1 + 15581 0.67 0.533997
Target:  5'- -aUUCGCUGAUcgccGAAGCUGAGaCGCa-- -3'
miRNA:   3'- ggAAGCGGCUA----CUUCGGCUC-GCGcua -5'
28039 3' -56.1 NC_005887.1 + 17440 0.67 0.530762
Target:  5'- aCggUGCCGAUccggcugcugcgaaGAAGaCCGAGCGCGc- -3'
miRNA:   3'- gGaaGCGGCUA--------------CUUC-GGCUCGCGCua -5'
28039 3' -56.1 NC_005887.1 + 39897 0.67 0.512571
Target:  5'- gCC-UCGUCGAcGgcGCCGuagcGCGCGAg -3'
miRNA:   3'- -GGaAGCGGCUaCuuCGGCu---CGCGCUa -5'
28039 3' -56.1 NC_005887.1 + 32409 0.67 0.512571
Target:  5'- cCUUUCGUCGAcGuGGCCG-GCgGCGAUg -3'
miRNA:   3'- -GGAAGCGGCUaCuUCGGCuCG-CGCUA- -5'
28039 3' -56.1 NC_005887.1 + 33884 0.67 0.512571
Target:  5'- --gUCGCCGAgcgGuugcGCCGGGCGCu-- -3'
miRNA:   3'- ggaAGCGGCUa--Cuu--CGGCUCGCGcua -5'
28039 3' -56.1 NC_005887.1 + 41409 0.67 0.512571
Target:  5'- gCCUUCGCCGAagcacucGggGCacucgcgaugCGGGuCGCGAc -3'
miRNA:   3'- -GGAAGCGGCUa------CuuCG----------GCUC-GCGCUa -5'
28039 3' -56.1 NC_005887.1 + 22100 0.67 0.501991
Target:  5'- cCCUUCuGUgGAaacUGcuGCCGGGUGCGAUu -3'
miRNA:   3'- -GGAAG-CGgCU---ACuuCGGCUCGCGCUA- -5'
28039 3' -56.1 NC_005887.1 + 39042 0.68 0.480094
Target:  5'- gUCUUCaGCCGAUGccaGAGCUGcgucgccGGCGUGAUc -3'
miRNA:   3'- -GGAAG-CGGCUAC---UUCGGC-------UCGCGCUA- -5'
28039 3' -56.1 NC_005887.1 + 28456 0.68 0.440726
Target:  5'- cCCUUCGUCGGcuUGuuGCCGGGcCGCu-- -3'
miRNA:   3'- -GGAAGCGGCU--ACuuCGGCUC-GCGcua -5'
28039 3' -56.1 NC_005887.1 + 37421 0.69 0.421261
Target:  5'- gCCUgcaCGCCaGGUGcgGAGUgGAGCGCGGc -3'
miRNA:   3'- -GGAa--GCGG-CUAC--UUCGgCUCGCGCUa -5'
28039 3' -56.1 NC_005887.1 + 27193 0.69 0.411725
Target:  5'- aCUUCGCC-AUGccGUCGAGCGCc-- -3'
miRNA:   3'- gGAAGCGGcUACuuCGGCUCGCGcua -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.