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
1254 5' -52.8 NC_001317.1 + 6008 0.66 0.632875
Target:  5'- gGUUGcauGGCGCAGCGggGCUUGUucccgcuGCGCg -3'
miRNA:   3'- -CAAU---UCGCGUUGCa-CGAGCGcu-----CGUG- -5'
1254 5' -52.8 NC_001317.1 + 9492 0.66 0.621029
Target:  5'- --aAGGUGCAGCGcaUGg-CGCGGGUGCa -3'
miRNA:   3'- caaUUCGCGUUGC--ACgaGCGCUCGUG- -5'
1254 5' -52.8 NC_001317.1 + 2889 0.66 0.621029
Target:  5'- gGUUGAGCGCAGa-UGCUucUGCGAGg-- -3'
miRNA:   3'- -CAAUUCGCGUUgcACGA--GCGCUCgug -5'
1254 5' -52.8 NC_001317.1 + 11808 0.67 0.609194
Target:  5'- --aAAGCGCGAUGUuaUUCGC-AGCGCg -3'
miRNA:   3'- caaUUCGCGUUGCAc-GAGCGcUCGUG- -5'
1254 5' -52.8 NC_001317.1 + 27358 0.67 0.585604
Target:  5'- gGUUugguGGCGCGGCc-GCUUGCGAcGCAUu -3'
miRNA:   3'- -CAAu---UCGCGUUGcaCGAGCGCU-CGUG- -5'
1254 5' -52.8 NC_001317.1 + 9402 0.67 0.550582
Target:  5'- aUUAAGCGCGAaaUGUUCGCcaaacuGCGCa -3'
miRNA:   3'- cAAUUCGCGUUgcACGAGCGcu----CGUG- -5'
1254 5' -52.8 NC_001317.1 + 10988 0.67 0.550582
Target:  5'- -aUAAGC-CAGCaUGCcugCGCGAGCAg -3'
miRNA:   3'- caAUUCGcGUUGcACGa--GCGCUCGUg -5'
1254 5' -52.8 NC_001317.1 + 18810 0.68 0.516228
Target:  5'- aUUGAGCGCGaaaaGCGUGCgCGUcAGCGu -3'
miRNA:   3'- cAAUUCGCGU----UGCACGaGCGcUCGUg -5'
1254 5' -52.8 NC_001317.1 + 10905 0.68 0.49381
Target:  5'- gGUUAucuGGCGuCAGCGUguuaaugaagcuGCUCGCGcaGGCAUg -3'
miRNA:   3'- -CAAU---UCGC-GUUGCA------------CGAGCGC--UCGUG- -5'
1254 5' -52.8 NC_001317.1 + 2487 0.69 0.450391
Target:  5'- --cGGGUGCGuCGUGCUCGCGc-CGCc -3'
miRNA:   3'- caaUUCGCGUuGCACGAGCGCucGUG- -5'
1254 5' -52.8 NC_001317.1 + 955 0.81 0.073365
Target:  5'- --cGGGUGCGggauguAgGUGCUCGCGAGCACg -3'
miRNA:   3'- caaUUCGCGU------UgCACGAGCGCUCGUG- -5'
1254 5' -52.8 NC_001317.1 + 1026 1.09 0.000669
Target:  5'- cGUUAAGCGCAACGUGCUCGCGAGCACc -3'
miRNA:   3'- -CAAUUCGCGUUGCACGAGCGCUCGUG- -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.