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 + 1516 0.7 0.549883
Target:  5'- gCCagCGAggaUCcggCGGCAGUGGUGCGCGGc -3'
miRNA:   3'- aGGa-GCU---AGa--GCCGUUGCUACGCGCC- -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 + 6660 0.66 0.773399
Target:  5'- gCCUacCGAguUCUacgucuacccCGGCAACGAUGgGuCGGg -3'
miRNA:   3'- aGGA--GCU--AGA----------GCCGUUGCUACgC-GCC- -5'
12438 5' -54.9 NC_003324.1 + 8746 0.74 0.317077
Target:  5'- aUCCa-GAUCUUGGCGGCGGUGU-CGGa -3'
miRNA:   3'- -AGGagCUAGAGCCGUUGCUACGcGCC- -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 + 13447 0.76 0.262634
Target:  5'- aUCCUCGAUCcguaCGGCAGCGcGUcgcauguuugguccgGCGCGGc -3'
miRNA:   3'- -AGGAGCUAGa---GCCGUUGC-UA---------------CGCGCC- -5'
12438 5' -54.9 NC_003324.1 + 15118 0.72 0.438282
Target:  5'- gCCaUCGGUCUCGGCGuCGAcacgGCGCc- -3'
miRNA:   3'- aGG-AGCUAGAGCCGUuGCUa---CGCGcc -5'
12438 5' -54.9 NC_003324.1 + 16431 0.7 0.51835
Target:  5'- gUCCUggacgacgCGAUCgaCGGCAACGccGuCGCGGa -3'
miRNA:   3'- -AGGA--------GCUAGa-GCCGUUGCuaC-GCGCC- -5'
12438 5' -54.9 NC_003324.1 + 17555 0.7 0.549883
Target:  5'- aCCaaaGGUC-CGGCAugcCGAUGCGCGa -3'
miRNA:   3'- aGGag-CUAGaGCCGUu--GCUACGCGCc -5'
12438 5' -54.9 NC_003324.1 + 17710 0.71 0.45766
Target:  5'- aUCCUCGGgcccgagCUCGGCGgcaucgugcucaACGgcGCGcCGGg -3'
miRNA:   3'- -AGGAGCUa------GAGCCGU------------UGCuaCGC-GCC- -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 + 18782 1.12 0.000893
Target:  5'- cUCCUCGAUCUCGGCAACGAUGCGCGGg -3'
miRNA:   3'- -AGGAGCUAGAGCCGUUGCUACGCGCC- -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 + 20662 0.66 0.773399
Target:  5'- gCUUCGAcca-GGCGGCGAUGCuuGGa -3'
miRNA:   3'- aGGAGCUagagCCGUUGCUACGcgCC- -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 + 22780 0.79 0.157811
Target:  5'- cCUUCGAcgagCUCGGCGugGAUGCGCu- -3'
miRNA:   3'- aGGAGCUa---GAGCCGUugCUACGCGcc -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 + 24750 0.66 0.792979
Target:  5'- cCCUCGAgucgCUUGcGCAggauuACGAUGUcgGUGGu -3'
miRNA:   3'- aGGAGCUa---GAGC-CGU-----UGCUACG--CGCC- -5'
12438 5' -54.9 NC_003324.1 + 26482 0.7 0.560529
Target:  5'- -gCUCGAcCUCGGCAGCGcucgacauaccGUcgaauugcgugGCGCGGg -3'
miRNA:   3'- agGAGCUaGAGCCGUUGC-----------UA-----------CGCGCC- -5'
12438 5' -54.9 NC_003324.1 + 26650 0.79 0.157811
Target:  5'- gUC-CGAUCUCGGCGAgGAUGUGCGu -3'
miRNA:   3'- aGGaGCUAGAGCCGUUgCUACGCGCc -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.