miRNA display CGI


Results 1 - 13 of 13 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
22293 3' -54.4 NC_005045.1 + 40905 0.66 0.666158
Target:  5'- -gGCCAGGGcUUGgcagCCCUcagUGGcgcGGCCUu -3'
miRNA:   3'- uaCGGUUCCaAACa---GGGA---ACU---CCGGG- -5'
22293 3' -54.4 NC_005045.1 + 38923 0.66 0.666158
Target:  5'- -gGCCGAGGUacgGUcaCCCaUGcGGGCCUc -3'
miRNA:   3'- uaCGGUUCCAaa-CA--GGGaAC-UCCGGG- -5'
22293 3' -54.4 NC_005045.1 + 39353 0.66 0.654743
Target:  5'- -aGCCAcGGGUg---CCgUcGAGGCCCu -3'
miRNA:   3'- uaCGGU-UCCAaacaGGgAaCUCCGGG- -5'
22293 3' -54.4 NC_005045.1 + 18720 0.66 0.643305
Target:  5'- -cGCCGAGGg--GUCCUg-GAGGaacuCCCu -3'
miRNA:   3'- uaCGGUUCCaaaCAGGGaaCUCC----GGG- -5'
22293 3' -54.4 NC_005045.1 + 1793 0.66 0.624986
Target:  5'- uGUGCCAucggcaauccucacuAGGUcUGUCUCUUGAauCCCc -3'
miRNA:   3'- -UACGGU---------------UCCAaACAGGGAACUccGGG- -5'
22293 3' -54.4 NC_005045.1 + 36850 0.67 0.586169
Target:  5'- aGUuCCAAGGgc-GUCCCUagcgGAGGCUg -3'
miRNA:   3'- -UAcGGUUCCaaaCAGGGAa---CUCCGGg -5'
22293 3' -54.4 NC_005045.1 + 16579 0.67 0.563534
Target:  5'- uUGCuCGgcAGGUgcucgGcgCCCUucuUGAGGCCCa -3'
miRNA:   3'- uACG-GU--UCCAaa---Ca-GGGA---ACUCCGGG- -5'
22293 3' -54.4 NC_005045.1 + 13011 0.69 0.486616
Target:  5'- cGUGCCAcggguGGUUgggGUCCUucUUGAuGGCCa -3'
miRNA:   3'- -UACGGUu----CCAAa--CAGGG--AACU-CCGGg -5'
22293 3' -54.4 NC_005045.1 + 17827 0.7 0.405339
Target:  5'- -cGCCGAGGUgg--CCCUgaccgagGAGGCUg -3'
miRNA:   3'- uaCGGUUCCAaacaGGGAa------CUCCGGg -5'
22293 3' -54.4 NC_005045.1 + 30442 0.7 0.399593
Target:  5'- uUGCCGAGGUUg--UCCUUGAaugccuugguguucuGGCCUu -3'
miRNA:   3'- uACGGUUCCAAacaGGGAACU---------------CCGGG- -5'
22293 3' -54.4 NC_005045.1 + 937 0.71 0.368032
Target:  5'- -cGCCAGGGcgc-UCCC-UGGGGCCUu -3'
miRNA:   3'- uaCGGUUCCaaacAGGGaACUCCGGG- -5'
22293 3' -54.4 NC_005045.1 + 25524 0.78 0.127427
Target:  5'- aAUGCCAAGGUg---CCCUUGGgcagguugaugcGGCCCg -3'
miRNA:   3'- -UACGGUUCCAaacaGGGAACU------------CCGGG- -5'
22293 3' -54.4 NC_005045.1 + 1674 1.1 0.000625
Target:  5'- aAUGCCAAGGUUUGUCCCUUGAGGCCCu -3'
miRNA:   3'- -UACGGUUCCAAACAGGGAACUCCGGG- -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.