miRNA display CGI


Results 1 - 12 of 12 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
2520 3' -56.7 NC_001454.1 + 17035 0.66 0.512745
Target:  5'- cCACGCCGuuaauGCCgGAagccAGCCCGUccACGa -3'
miRNA:   3'- -GUGCGGUu----CGGaCU----UCGGGCGu-UGCc -5'
2520 3' -56.7 NC_001454.1 + 6209 0.66 0.512745
Target:  5'- gCGCGCUcguagggauuGAGUggGAAGCCCcacgGCAugGGa -3'
miRNA:   3'- -GUGCGG----------UUCGgaCUUCGGG----CGUugCC- -5'
2520 3' -56.7 NC_001454.1 + 16086 0.67 0.464344
Target:  5'- aACGC--AGCCUGAgcugccagaggccguAGCCCGUG-CGGu -3'
miRNA:   3'- gUGCGguUCGGACU---------------UCGGGCGUuGCC- -5'
2520 3' -56.7 NC_001454.1 + 16678 0.67 0.440053
Target:  5'- gAgGCCAcGCCUGGGauugcGCCUaugGCGGCGGc -3'
miRNA:   3'- gUgCGGUuCGGACUU-----CGGG---CGUUGCC- -5'
2520 3' -56.7 NC_001454.1 + 8962 0.67 0.440053
Target:  5'- aGCGCCGgucAGCCccGAGGguCCCGCugUGGa -3'
miRNA:   3'- gUGCGGU---UCGGa-CUUC--GGGCGuuGCC- -5'
2520 3' -56.7 NC_001454.1 + 15170 0.68 0.391877
Target:  5'- -uCGUCAGGCCgcccgucAGgCCGCGGCGGc -3'
miRNA:   3'- guGCGGUUCGGacu----UCgGGCGUUGCC- -5'
2520 3' -56.7 NC_001454.1 + 8169 0.68 0.355894
Target:  5'- gCACGUC-GGCgUGGAGCUCggGUAGCGGu -3'
miRNA:   3'- -GUGCGGuUCGgACUUCGGG--CGUUGCC- -5'
2520 3' -56.7 NC_001454.1 + 15434 0.7 0.282983
Target:  5'- gACGUCAAGCCcGAcauuaAGCCuCGCGugcucaaGCGGg -3'
miRNA:   3'- gUGCGGUUCGGaCU-----UCGG-GCGU-------UGCC- -5'
2520 3' -56.7 NC_001454.1 + 15484 0.74 0.165198
Target:  5'- aAUGUCGGGCUUGAcGUCCGCGGCaGGg -3'
miRNA:   3'- gUGCGGUUCGGACUuCGGGCGUUG-CC- -5'
2520 3' -56.7 NC_001454.1 + 17425 0.75 0.13553
Target:  5'- -gUGCCAAGCgUcGGAGCCgGCAugGGc -3'
miRNA:   3'- guGCGGUUCGgA-CUUCGGgCGUugCC- -5'
2520 3' -56.7 NC_001454.1 + 15232 0.76 0.114084
Target:  5'- -cCGCCGcGGCCUGAcgggcGGCCUGaCGACGGg -3'
miRNA:   3'- guGCGGU-UCGGACU-----UCGGGC-GUUGCC- -5'
2520 3' -56.7 NC_001454.1 + 15789 1.09 0.000365
Target:  5'- cCACGCCAAGCCUGAAGCCCGCAACGGc -3'
miRNA:   3'- -GUGCGGUUCGGACUUCGGGCGUUGCC- -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.