miRNA display CGI


Results 1 - 20 of 22 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
25051 5' -54.3 NC_005336.1 + 87416 0.66 0.942017
Target:  5'- cGUGGAGAGCAguauguuguUGGUCGcCGUCu---- -3'
miRNA:   3'- -UACCUCUCGU---------ACCAGCuGUAGcacgc -5'
25051 5' -54.3 NC_005336.1 + 121920 0.66 0.941545
Target:  5'- cAUGGgcgugcgccucguGGAGCA-GGUgGACGugguagugcUCGUGCGg -3'
miRNA:   3'- -UACC-------------UCUCGUaCCAgCUGU---------AGCACGC- -5'
25051 5' -54.3 NC_005336.1 + 38510 0.66 0.93719
Target:  5'- uUGGAGAggauuauguGCAUGGUCGAguccuugaaUAUCuucacgcagGUGCGg -3'
miRNA:   3'- uACCUCU---------CGUACCAGCU---------GUAG---------CACGC- -5'
25051 5' -54.3 NC_005336.1 + 13851 0.66 0.932113
Target:  5'- -aGGAGAGCAgcacGUCGGUGUCGcacgGCGg -3'
miRNA:   3'- uaCCUCUCGUac--CAGCUGUAGCa---CGC- -5'
25051 5' -54.3 NC_005336.1 + 7612 0.66 0.932113
Target:  5'- -gGGAGAGUGgaGUCGAgAUCGgaUGCGa -3'
miRNA:   3'- uaCCUCUCGUacCAGCUgUAGC--ACGC- -5'
25051 5' -54.3 NC_005336.1 + 14357 0.66 0.932113
Target:  5'- -aGGAGuAGCAgcGGUccgCGACGagGUGCGg -3'
miRNA:   3'- uaCCUC-UCGUa-CCA---GCUGUagCACGC- -5'
25051 5' -54.3 NC_005336.1 + 66396 0.66 0.930012
Target:  5'- cUGGAGgugggccuccgcAGCGUGGUCGugcccgugaaguuCAUCG-GCGa -3'
miRNA:   3'- uACCUC------------UCGUACCAGCu------------GUAGCaCGC- -5'
25051 5' -54.3 NC_005336.1 + 113885 0.66 0.926786
Target:  5'- -cGGAGAcGC-UGGUCGGCGUgGU-CGu -3'
miRNA:   3'- uaCCUCU-CGuACCAGCUGUAgCAcGC- -5'
25051 5' -54.3 NC_005336.1 + 53183 0.66 0.926786
Target:  5'- -aGGAGAuCGUGcaCGACGUgGUGCGc -3'
miRNA:   3'- uaCCUCUcGUACcaGCUGUAgCACGC- -5'
25051 5' -54.3 NC_005336.1 + 54620 0.67 0.909303
Target:  5'- -cGcGAGGGCucgcUGGUgGACAUCGcGCa -3'
miRNA:   3'- uaC-CUCUCGu---ACCAgCUGUAGCaCGc -5'
25051 5' -54.3 NC_005336.1 + 88345 0.67 0.909303
Target:  5'- gGUGuAGAGCAUGGUCG-CG-CGgGCGu -3'
miRNA:   3'- -UACcUCUCGUACCAGCuGUaGCaCGC- -5'
25051 5' -54.3 NC_005336.1 + 32613 0.67 0.902979
Target:  5'- gGUGcGGGAGCAUGGcgggcaCGACcucaGUCGUGUu -3'
miRNA:   3'- -UAC-CUCUCGUACCa-----GCUG----UAGCACGc -5'
25051 5' -54.3 NC_005336.1 + 93613 0.67 0.89641
Target:  5'- cGUGGAG-GCGcuggcgcggcUGcGUCGGCGcuUCGUGCa -3'
miRNA:   3'- -UACCUCuCGU----------AC-CAGCUGU--AGCACGc -5'
25051 5' -54.3 NC_005336.1 + 82194 0.68 0.87527
Target:  5'- cGUGGAuGGGCGccGUCGAUGUCGUGa- -3'
miRNA:   3'- -UACCU-CUCGUacCAGCUGUAGCACgc -5'
25051 5' -54.3 NC_005336.1 + 16096 0.68 0.867761
Target:  5'- -aGGAGuccGCGUGGUgGuGCAgcggCGUGCGu -3'
miRNA:   3'- uaCCUCu--CGUACCAgC-UGUa---GCACGC- -5'
25051 5' -54.3 NC_005336.1 + 59803 0.69 0.83557
Target:  5'- cGUGGuGAGCcUGGUgGGCGgcgaugacgcCGUGCGg -3'
miRNA:   3'- -UACCuCUCGuACCAgCUGUa---------GCACGC- -5'
25051 5' -54.3 NC_005336.1 + 131533 0.69 0.818282
Target:  5'- --cGAGGGCAUGGcCGGCAUCucUGUGa -3'
miRNA:   3'- uacCUCUCGUACCaGCUGUAGc-ACGC- -5'
25051 5' -54.3 NC_005336.1 + 124649 0.7 0.781649
Target:  5'- cAUGGAGGaCGUGGgCGGCggCGUGCu -3'
miRNA:   3'- -UACCUCUcGUACCaGCUGuaGCACGc -5'
25051 5' -54.3 NC_005336.1 + 15916 0.71 0.702269
Target:  5'- cGUGGAGGGCAUGGgcaGgguGC-UCGUGCu -3'
miRNA:   3'- -UACCUCUCGUACCag-C---UGuAGCACGc -5'
25051 5' -54.3 NC_005336.1 + 74819 0.72 0.660775
Target:  5'- -cGGAGGGCGUGGgCGugAUgGcGCGg -3'
miRNA:   3'- uaCCUCUCGUACCaGCugUAgCaCGC- -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.