miRNA display CGI


Results 1 - 14 of 14 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
12013 3' -55.1 NC_003278.1 + 12058 0.66 0.637168
Target:  5'- uGGGCGGGAUcaGGucacuGAacaagccggucaGGACCA-CGCCa -3'
miRNA:   3'- uCUCGCCCUG--CCu----CU------------UCUGGUaGUGG- -5'
12013 3' -55.1 NC_003278.1 + 13257 0.66 0.636038
Target:  5'- cGGGGCGcugccguugcccuGGGCGGccugcACCGUCACCa -3'
miRNA:   3'- -UCUCGC-------------CCUGCCucuucUGGUAGUGG- -5'
12013 3' -55.1 NC_003278.1 + 1086 0.66 0.603286
Target:  5'- uAGcAGCGuGGGCuugaacuuGAAGACCAUCGCg -3'
miRNA:   3'- -UC-UCGC-CCUGccu-----CUUCUGGUAGUGg -5'
12013 3' -55.1 NC_003278.1 + 33188 0.67 0.568522
Target:  5'- cGAGCGGaucggcaauGCGGuuccgccggcugcGGccGAGGCCAUCGCCg -3'
miRNA:   3'- uCUCGCCc--------UGCC-------------UC--UUCUGGUAGUGG- -5'
12013 3' -55.1 NC_003278.1 + 20311 0.68 0.493362
Target:  5'- cGAGCaGGGccgugGCGGuGguGACCGUCuCCa -3'
miRNA:   3'- uCUCG-CCC-----UGCCuCuuCUGGUAGuGG- -5'
12013 3' -55.1 NC_003278.1 + 14303 0.68 0.472407
Target:  5'- cGAG-GGGAUGGGGucaGCCGucUCGCCg -3'
miRNA:   3'- uCUCgCCCUGCCUCuucUGGU--AGUGG- -5'
12013 3' -55.1 NC_003278.1 + 12182 0.69 0.431912
Target:  5'- cAGGGCGacuacauccaGACGGGcaaccAGACCGUCACCg -3'
miRNA:   3'- -UCUCGCc---------CUGCCUcu---UCUGGUAGUGG- -5'
12013 3' -55.1 NC_003278.1 + 6311 0.69 0.422108
Target:  5'- -uGGCGGGACu--GAAGGCCAugUCAUCu -3'
miRNA:   3'- ucUCGCCCUGccuCUUCUGGU--AGUGG- -5'
12013 3' -55.1 NC_003278.1 + 32099 0.7 0.393517
Target:  5'- cAGAcGCGGGACGuucucGAAGACgAUCAgCg -3'
miRNA:   3'- -UCU-CGCCCUGCcu---CUUCUGgUAGUgG- -5'
12013 3' -55.1 NC_003278.1 + 19499 0.7 0.393517
Target:  5'- --cGCGGGugGGGuugccggcGgcGGCCAUCugCu -3'
miRNA:   3'- ucuCGCCCugCCU--------CuuCUGGUAGugG- -5'
12013 3' -55.1 NC_003278.1 + 29709 0.7 0.393517
Target:  5'- cGGGC-GGACGaGGAAGGCCAggACCc -3'
miRNA:   3'- uCUCGcCCUGCcUCUUCUGGUagUGG- -5'
12013 3' -55.1 NC_003278.1 + 29400 0.71 0.315634
Target:  5'- --cGCGGcGGCGugaucGAGAAGGCCAaCGCCg -3'
miRNA:   3'- ucuCGCC-CUGC-----CUCUUCUGGUaGUGG- -5'
12013 3' -55.1 NC_003278.1 + 13051 0.73 0.263514
Target:  5'- cGAGCGGG-CGcagauggccuGGGAAGGCCucagCACCg -3'
miRNA:   3'- uCUCGCCCuGC----------CUCUUCUGGua--GUGG- -5'
12013 3' -55.1 NC_003278.1 + 23481 1.13 0.000355
Target:  5'- aAGAGCGGGACGGAGAAGACCAUCACCg -3'
miRNA:   3'- -UCUCGCCCUGCCUCUUCUGGUAGUGG- -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.