miRNA display CGI


Results 1 - 20 of 38 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
12438 5' -54.9 NC_003324.1 + 24750 0.66 0.792979
Target:  5'- cCCUCGAgucgCUUGcGCAggauuACGAUGUcgGUGGu -3'
miRNA:   3'- aGGAGCUa---GAGC-CGU-----UGCUACG--CGCC- -5'
12438 5' -54.9 NC_003324.1 + 30250 0.66 0.792979
Target:  5'- aCCgcCGAcaccaUCGGCGAUGAUGCG-GGc -3'
miRNA:   3'- aGGa-GCUag---AGCCGUUGCUACGCgCC- -5'
12438 5' -54.9 NC_003324.1 + 28335 0.66 0.78717
Target:  5'- uUCCacCGAUC-CGGCAccagucgcagcaguCGAUGaCGCGGc -3'
miRNA:   3'- -AGGa-GCUAGaGCCGUu-------------GCUAC-GCGCC- -5'
12438 5' -54.9 NC_003324.1 + 41343 0.66 0.783266
Target:  5'- gCCUCGAaaUCGGCGcUGG-GgGCGGc -3'
miRNA:   3'- aGGAGCUagAGCCGUuGCUaCgCGCC- -5'
12438 5' -54.9 NC_003324.1 + 57398 0.66 0.782286
Target:  5'- gUCCUCacugcugGAgggCUCGGCGgagGCGA-GgGCGGc -3'
miRNA:   3'- -AGGAG-------CUa--GAGCCGU---UGCUaCgCGCC- -5'
12438 5' -54.9 NC_003324.1 + 20662 0.66 0.773399
Target:  5'- gCUUCGAcca-GGCGGCGAUGCuuGGa -3'
miRNA:   3'- aGGAGCUagagCCGUUGCUACGcgCC- -5'
12438 5' -54.9 NC_003324.1 + 6660 0.66 0.773399
Target:  5'- gCCUacCGAguUCUacgucuacccCGGCAACGAUGgGuCGGg -3'
miRNA:   3'- aGGA--GCU--AGA----------GCCGUUGCUACgC-GCC- -5'
12438 5' -54.9 NC_003324.1 + 12481 0.66 0.772405
Target:  5'- aUCgUCGAUCUCGGUcACGcgGUcugcuacGCGu -3'
miRNA:   3'- -AGgAGCUAGAGCCGuUGCuaCG-------CGCc -5'
12438 5' -54.9 NC_003324.1 + 5278 0.66 0.763391
Target:  5'- aUCCUCGAUCUCG-CuAUGAUcccgGC-CGGa -3'
miRNA:   3'- -AGGAGCUAGAGCcGuUGCUA----CGcGCC- -5'
12438 5' -54.9 NC_003324.1 + 40068 0.66 0.763391
Target:  5'- cCCUCGccacgCUCGGCGcgACGGacuuggagauUGCGCaGGc -3'
miRNA:   3'- aGGAGCua---GAGCCGU--UGCU----------ACGCG-CC- -5'
12438 5' -54.9 NC_003324.1 + 38003 0.66 0.763391
Target:  5'- gCCggagCGGUUgCGGCGcACGggGCGCGu -3'
miRNA:   3'- aGGa---GCUAGaGCCGU-UGCuaCGCGCc -5'
12438 5' -54.9 NC_003324.1 + 21323 0.67 0.74299
Target:  5'- aUCCUCGAUUUCGcGCGuuuucaGAuUGCccuuGCGGa -3'
miRNA:   3'- -AGGAGCUAGAGC-CGUug----CU-ACG----CGCC- -5'
12438 5' -54.9 NC_003324.1 + 39773 0.67 0.732621
Target:  5'- -gCUCGAugaUCUCGGC-ACGGUGCa--- -3'
miRNA:   3'- agGAGCU---AGAGCCGuUGCUACGcgcc -5'
12438 5' -54.9 NC_003324.1 + 24278 0.67 0.711598
Target:  5'- cUCgUCGAUCUgGGCAcggcggagcuugGCGAaggcGuCGCGGa -3'
miRNA:   3'- -AGgAGCUAGAgCCGU------------UGCUa---C-GCGCC- -5'
12438 5' -54.9 NC_003324.1 + 19150 0.67 0.702032
Target:  5'- gUCCUUGAUCUUcuggagcgucugcuuGUAGCGGuccucUGCGCGGc -3'
miRNA:   3'- -AGGAGCUAGAGc--------------CGUUGCU-----ACGCGCC- -5'
12438 5' -54.9 NC_003324.1 + 18406 0.67 0.694555
Target:  5'- aUCCUCGGcgcccgcuuuggcggUCUCaccaaggccggGGCAGCGAUugcccGCGCGu -3'
miRNA:   3'- -AGGAGCU---------------AGAG-----------CCGUUGCUA-----CGCGCc -5'
12438 5' -54.9 NC_003324.1 + 54434 0.68 0.679518
Target:  5'- gCCUCGA-CUgggucauagcCGGCGGCGAga-GCGGa -3'
miRNA:   3'- aGGAGCUaGA----------GCCGUUGCUacgCGCC- -5'
12438 5' -54.9 NC_003324.1 + 30094 0.68 0.668723
Target:  5'- uUCCUCGAcgccUUCGGuCAGCGAUuGCGaaGGg -3'
miRNA:   3'- -AGGAGCUa---GAGCC-GUUGCUA-CGCg-CC- -5'
12438 5' -54.9 NC_003324.1 + 29207 0.68 0.657895
Target:  5'- cUUCUCG-UC-CGGCAgcacuACGGUGCGCu- -3'
miRNA:   3'- -AGGAGCuAGaGCCGU-----UGCUACGCGcc -5'
12438 5' -54.9 NC_003324.1 + 29729 0.68 0.657895
Target:  5'- -aCUCGAUCccggcucaggCGGCGGCGuUGCGCc- -3'
miRNA:   3'- agGAGCUAGa---------GCCGUUGCuACGCGcc -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.