miRNA display CGI


Results 1 - 17 of 17 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
7200 3' -51.2 NC_001900.1 + 22854 1.1 0.002205
Target:  5'- aUCACGGUCGAGGAGUACACCAAGAAGu -3'
miRNA:   3'- -AGUGCCAGCUCCUCAUGUGGUUCUUC- -5'
7200 3' -51.2 NC_001900.1 + 8352 0.76 0.379474
Target:  5'- gCugGGcUUGGGGGaUGCGCCAGGAAGg -3'
miRNA:   3'- aGugCC-AGCUCCUcAUGUGGUUCUUC- -5'
7200 3' -51.2 NC_001900.1 + 13821 0.71 0.610015
Target:  5'- gCugGGU-GAGcGGGUGgACCGAGAAGc -3'
miRNA:   3'- aGugCCAgCUC-CUCAUgUGGUUCUUC- -5'
7200 3' -51.2 NC_001900.1 + 42429 0.71 0.632734
Target:  5'- aUCugGGUgaacgCGucGGAGUcCGCCGAGAAGu -3'
miRNA:   3'- -AGugCCA-----GCu-CCUCAuGUGGUUCUUC- -5'
7200 3' -51.2 NC_001900.1 + 23743 0.7 0.66678
Target:  5'- gCACGGUCGAcg---GCAUCGAGAAGg -3'
miRNA:   3'- aGUGCCAGCUccucaUGUGGUUCUUC- -5'
7200 3' -51.2 NC_001900.1 + 1288 0.69 0.755147
Target:  5'- gCACcGUCGAcgcugagcuGGAGaaggGCACCAAGggGu -3'
miRNA:   3'- aGUGcCAGCU---------CCUCa---UGUGGUUCuuC- -5'
7200 3' -51.2 NC_001900.1 + 14996 0.69 0.765722
Target:  5'- -aGCGGcCGAGGAGUucaGCCAuGAGu -3'
miRNA:   3'- agUGCCaGCUCCUCAug-UGGUuCUUc -5'
7200 3' -51.2 NC_001900.1 + 33909 0.68 0.786422
Target:  5'- aCGCGGU-GAGGAacuggucguuGUcaGCACCGAGAAc -3'
miRNA:   3'- aGUGCCAgCUCCU----------CA--UGUGGUUCUUc -5'
7200 3' -51.2 NC_001900.1 + 5276 0.68 0.816159
Target:  5'- cUCACaG-CGAGGAGcgGCccgACCGGGAAGu -3'
miRNA:   3'- -AGUGcCaGCUCCUCa-UG---UGGUUCUUC- -5'
7200 3' -51.2 NC_001900.1 + 48124 0.67 0.825674
Target:  5'- gUCGCGGuugcuugcgaUCGAGGAGUu--CCuGGAGGc -3'
miRNA:   3'- -AGUGCC----------AGCUCCUCAuguGGuUCUUC- -5'
7200 3' -51.2 NC_001900.1 + 43910 0.67 0.834972
Target:  5'- -aGCGGUCGuuccAGGcgcGUGCGCCGucguAGAGGa -3'
miRNA:   3'- agUGCCAGC----UCCu--CAUGUGGU----UCUUC- -5'
7200 3' -51.2 NC_001900.1 + 8321 0.67 0.861463
Target:  5'- -gACGGguUCcGGGAGgGCAUCGAGAAGc -3'
miRNA:   3'- agUGCC--AGcUCCUCaUGUGGUUCUUC- -5'
7200 3' -51.2 NC_001900.1 + 8475 0.66 0.869794
Target:  5'- aCGCGGcCGAGGAcuccuggcuGU-CACCGcAGGAGu -3'
miRNA:   3'- aGUGCCaGCUCCU---------CAuGUGGU-UCUUC- -5'
7200 3' -51.2 NC_001900.1 + 6750 0.66 0.877863
Target:  5'- cCGuCGGUCGAGaaGGGUGuCGCCGAGcuGa -3'
miRNA:   3'- aGU-GCCAGCUC--CUCAU-GUGGUUCuuC- -5'
7200 3' -51.2 NC_001900.1 + 18913 0.66 0.885661
Target:  5'- -gAUGGUCcAGGAG---GCCAAGAAGc -3'
miRNA:   3'- agUGCCAGcUCCUCaugUGGUUCUUC- -5'
7200 3' -51.2 NC_001900.1 + 8789 0.66 0.900422
Target:  5'- aCACGGUCGAGGAcaugacccgcGUGacccUCAAGAc- -3'
miRNA:   3'- aGUGCCAGCUCCU----------CAUgu--GGUUCUuc -5'
7200 3' -51.2 NC_001900.1 + 20881 0.66 0.900422
Target:  5'- gUCugGGacaUCGAGGAcaacucuggcuGggGCACCGAGAc- -3'
miRNA:   3'- -AGugCC---AGCUCCU-----------Ca-UGUGGUUCUuc -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.