miRNA display CGI


Results 1 - 16 of 16 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
2070 3' -57.6 NC_001348.1 + 105662 0.66 0.823274
Target:  5'- cGCCGgccuccGGCCCGgcGGCCcccggucuccGUC-CCUCGGg -3'
miRNA:   3'- aUGGC------UCGGGCa-CUGG----------UAGuGGAGCC- -5'
2070 3' -57.6 NC_001348.1 + 124130 0.66 0.823274
Target:  5'- cGCCGgccuccGGCCCGgcGGCCcccggucuccGUC-CCUCGGg -3'
miRNA:   3'- aUGGC------UCGGGCa-CUGG----------UAGuGGAGCC- -5'
2070 3' -57.6 NC_001348.1 + 5948 0.66 0.805958
Target:  5'- cGCCGucCCUGUGGuuGUUACUUUGGa -3'
miRNA:   3'- aUGGCucGGGCACUggUAGUGGAGCC- -5'
2070 3' -57.6 NC_001348.1 + 21115 0.66 0.805958
Target:  5'- gGCCGcuacccgaaAGCCCGauccGCCGUCgcgcccACCUCGGc -3'
miRNA:   3'- aUGGC---------UCGGGCac--UGGUAG------UGGAGCC- -5'
2070 3' -57.6 NC_001348.1 + 66893 0.66 0.797061
Target:  5'- cACCGGGUCCGgauccggGGCCAUCuuaUCGa -3'
miRNA:   3'- aUGGCUCGGGCa------CUGGUAGuggAGCc -5'
2070 3' -57.6 NC_001348.1 + 106828 0.67 0.788017
Target:  5'- cACCacaGGGCCCGaggUGAUgGUCACgggCUCGGa -3'
miRNA:   3'- aUGG---CUCGGGC---ACUGgUAGUG---GAGCC- -5'
2070 3' -57.6 NC_001348.1 + 123987 0.67 0.788017
Target:  5'- cGCCGGGCCgGaGGCCGgcgacguaccCACCUgGGc -3'
miRNA:   3'- aUGGCUCGGgCaCUGGUa---------GUGGAgCC- -5'
2070 3' -57.6 NC_001348.1 + 105805 0.67 0.788017
Target:  5'- cGCCGGGCCgGaGGCCGgcgacguaccCACCUgGGc -3'
miRNA:   3'- aUGGCUCGGgCaCUGGUa---------GUGGAgCC- -5'
2070 3' -57.6 NC_001348.1 + 122963 0.67 0.788017
Target:  5'- cACCacaGGGCCCGaggUGAUgGUCACgggCUCGGa -3'
miRNA:   3'- aUGG---CUCGGGC---ACUGgUAGUG---GAGCC- -5'
2070 3' -57.6 NC_001348.1 + 109053 0.68 0.710403
Target:  5'- cGCCGAacacaggGCCCG-GGugGUCACCUCGa -3'
miRNA:   3'- aUGGCU-------CGGGCaCUggUAGUGGAGCc -5'
2070 3' -57.6 NC_001348.1 + 107248 0.69 0.671189
Target:  5'- gGCCuccCCCGUGGCCAUgGCUUCGc -3'
miRNA:   3'- aUGGcucGGGCACUGGUAgUGGAGCc -5'
2070 3' -57.6 NC_001348.1 + 3669 0.69 0.671189
Target:  5'- cACCgcggGAGCCagCGUGACCAUUGaCUCGGu -3'
miRNA:   3'- aUGG----CUCGG--GCACUGGUAGUgGAGCC- -5'
2070 3' -57.6 NC_001348.1 + 122544 0.69 0.671189
Target:  5'- gGCCuccCCCGUGGCCAUgGCUUCGc -3'
miRNA:   3'- aUGGcucGGGCACUGGUAgUGGAGCc -5'
2070 3' -57.6 NC_001348.1 + 24567 0.7 0.589772
Target:  5'- cAUCGugguucauGGCCCGUGACauaAUUGCCUUGGc -3'
miRNA:   3'- aUGGC--------UCGGGCACUGg--UAGUGGAGCC- -5'
2070 3' -57.6 NC_001348.1 + 122804 1.04 0.003885
Target:  5'- -uCCGAGCCCGUGACCAUCACCUCGGg -3'
miRNA:   3'- auGGCUCGGGCACUGGUAGUGGAGCC- -5'
2070 3' -57.6 NC_001348.1 + 106987 1.04 0.003885
Target:  5'- -uCCGAGCCCGUGACCAUCACCUCGGg -3'
miRNA:   3'- auGGCUCGGGCACUGGUAGUGGAGCC- -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.