miRNA display CGI


Results 1 - 20 of 25 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
30893 5' -62.3 NC_006552.1 + 4149 0.69 0.2785
Target:  5'- uGUACCGAuCGCaaGGCUGGAUguucccGCGCCa- -3'
miRNA:   3'- cCGUGGCU-GCG--CCGGCCUA------CGCGGau -5'
30893 5' -62.3 NC_006552.1 + 12853 0.67 0.359601
Target:  5'- uGC-CCGGCG-GGCCuGGAuuuccugcUGCGCCUc -3'
miRNA:   3'- cCGuGGCUGCgCCGG-CCU--------ACGCGGAu -5'
30893 5' -62.3 NC_006552.1 + 13829 0.7 0.233166
Target:  5'- aGGUGCCGGCGCGcacguucaucaggcGCCGGuacUGgGCCa- -3'
miRNA:   3'- -CCGUGGCUGCGC--------------CGGCCu--ACgCGGau -5'
30893 5' -62.3 NC_006552.1 + 15466 0.67 0.351586
Target:  5'- cGGCGCCaGCGauacaGCCGGuugugcggcuUGCGCCUGc -3'
miRNA:   3'- -CCGUGGcUGCgc---CGGCCu---------ACGCGGAU- -5'
30893 5' -62.3 NC_006552.1 + 21882 0.7 0.207381
Target:  5'- aGCACCaGCGCGGCaauGGAUGCcCCg- -3'
miRNA:   3'- cCGUGGcUGCGCCGg--CCUACGcGGau -5'
30893 5' -62.3 NC_006552.1 + 21918 0.66 0.392918
Target:  5'- aGCGCCuGCaCGGCCuGAUGCGCg-- -3'
miRNA:   3'- cCGUGGcUGcGCCGGcCUACGCGgau -5'
30893 5' -62.3 NC_006552.1 + 25793 0.73 0.137365
Target:  5'- aGGUACCGGCaCGGCCGG-UGaUGCCg- -3'
miRNA:   3'- -CCGUGGCUGcGCCGGCCuAC-GCGGau -5'
30893 5' -62.3 NC_006552.1 + 25982 0.67 0.341357
Target:  5'- uGCA-CGACGCGacacgcucaggcuuGCCGGAUcaGCGCCa- -3'
miRNA:   3'- cCGUgGCUGCGC--------------CGGCCUA--CGCGGau -5'
30893 5' -62.3 NC_006552.1 + 32309 0.67 0.367743
Target:  5'- cGGCACaCGGCGuCGGCCuggcucucguGGAUcaGCCUGc -3'
miRNA:   3'- -CCGUG-GCUGC-GCCGG----------CCUAcgCGGAU- -5'
30893 5' -62.3 NC_006552.1 + 32702 0.68 0.320806
Target:  5'- cGCcgGCCGGCGCggGGCCGGuggaGCGCUc- -3'
miRNA:   3'- cCG--UGGCUGCG--CCGGCCua--CGCGGau -5'
30893 5' -62.3 NC_006552.1 + 33656 0.67 0.367743
Target:  5'- cGGCACCGAaGUGGUCGGAaaucaccaguUGCagGUCUu -3'
miRNA:   3'- -CCGUGGCUgCGCCGGCCU----------ACG--CGGAu -5'
30893 5' -62.3 NC_006552.1 + 34341 0.74 0.114146
Target:  5'- cGCAUCGACGCGGaagauCGGGUGCuGCUUGg -3'
miRNA:   3'- cCGUGGCUGCGCCg----GCCUACG-CGGAU- -5'
30893 5' -62.3 NC_006552.1 + 34631 0.66 0.384403
Target:  5'- uGGCAUCGGCGCuGGCaacgaagugaCGGuucuuggucgGCGCCUu -3'
miRNA:   3'- -CCGUGGCUGCG-CCG----------GCCua--------CGCGGAu -5'
30893 5' -62.3 NC_006552.1 + 35916 0.66 0.410312
Target:  5'- aGGCguuguagcuuGCCuGCGCGGCCuGGGcuUGgGCCUu -3'
miRNA:   3'- -CCG----------UGGcUGCGCCGG-CCU--ACgCGGAu -5'
30893 5' -62.3 NC_006552.1 + 39428 0.69 0.252226
Target:  5'- cGCACgCGAucUGCGGCCGGAacgcuucggagcaUGCGCg-- -3'
miRNA:   3'- cCGUG-GCU--GCGCCGGCCU-------------ACGCGgau -5'
30893 5' -62.3 NC_006552.1 + 45403 0.69 0.274523
Target:  5'- cGGCGCCGACGaauuccccgcccggGGCCGGc-GCaGCCUc -3'
miRNA:   3'- -CCGUGGCUGCg-------------CCGGCCuaCG-CGGAu -5'
30893 5' -62.3 NC_006552.1 + 50224 0.66 0.392918
Target:  5'- cGGCgAUCGAgGCGGCCcGAaGCGCa-- -3'
miRNA:   3'- -CCG-UGGCUgCGCCGGcCUaCGCGgau -5'
30893 5' -62.3 NC_006552.1 + 51397 0.67 0.351586
Target:  5'- aGUACgCGACGCuGCCGGA--CGCCa- -3'
miRNA:   3'- cCGUG-GCUGCGcCGGCCUacGCGGau -5'
30893 5' -62.3 NC_006552.1 + 52648 0.68 0.306189
Target:  5'- aGGCACaUGAUcUGGCCGGAguaucgGCGCUg- -3'
miRNA:   3'- -CCGUG-GCUGcGCCGGCCUa-----CGCGGau -5'
30893 5' -62.3 NC_006552.1 + 52945 0.69 0.246136
Target:  5'- uGCGCCGGCgcccgccgccgguGCGGCaucCGGGUGCGCg-- -3'
miRNA:   3'- cCGUGGCUG-------------CGCCG---GCCUACGCGgau -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.