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
12212 3' -57.6 NC_003309.1 + 11976 0.66 0.572673
Target:  5'- -aGcCGCGGCGcGCGcCGCGUcGGCGUUg -3'
miRNA:   3'- uaCaGCGCUGC-CGU-GCGCGcUUGCAA- -5'
12212 3' -57.6 NC_003309.1 + 6760 0.66 0.572673
Target:  5'- uUGaUCGUcACGGCGCGCGCauACGg- -3'
miRNA:   3'- uAC-AGCGcUGCCGUGCGCGcuUGCaa -5'
12212 3' -57.6 NC_003309.1 + 36556 0.66 0.561871
Target:  5'- -cGUCGCGGcCGGCGCGauCGAgaagGCGa- -3'
miRNA:   3'- uaCAGCGCU-GCCGUGCgcGCU----UGCaa -5'
12212 3' -57.6 NC_003309.1 + 28819 0.66 0.55864
Target:  5'- cAUGUCGCccGCGGgAuagagcugcaacauCGCGCGAGCGg- -3'
miRNA:   3'- -UACAGCGc-UGCCgU--------------GCGCGCUUGCaa -5'
12212 3' -57.6 NC_003309.1 + 43503 0.66 0.551124
Target:  5'- -gGUCGCGGCaGUcuccGCgGUGCGAACGg- -3'
miRNA:   3'- uaCAGCGCUGcCG----UG-CGCGCUUGCaa -5'
12212 3' -57.6 NC_003309.1 + 9719 0.66 0.540441
Target:  5'- -cGUCGCGucgaGCGGUugccgugugucGCGCGCGAuGCGc- -3'
miRNA:   3'- uaCAGCGC----UGCCG-----------UGCGCGCU-UGCaa -5'
12212 3' -57.6 NC_003309.1 + 8374 0.66 0.540441
Target:  5'- -cGUCGCacgcGCGGCACGCa-GAAUGUUu -3'
miRNA:   3'- uaCAGCGc---UGCCGUGCGcgCUUGCAA- -5'
12212 3' -57.6 NC_003309.1 + 49472 0.67 0.488214
Target:  5'- ---aUGCGcCGaGCACGCGCGAAUGc- -3'
miRNA:   3'- uacaGCGCuGC-CGUGCGCGCUUGCaa -5'
12212 3' -57.6 NC_003309.1 + 19449 0.67 0.467987
Target:  5'- cGUGUCGCGGCGGagccguCACcCGgGAACGc- -3'
miRNA:   3'- -UACAGCGCUGCC------GUGcGCgCUUGCaa -5'
12212 3' -57.6 NC_003309.1 + 25867 0.67 0.466988
Target:  5'- -cGUCGgGGCGccgaacaGCACcgGCGCGAGCGg- -3'
miRNA:   3'- uaCAGCgCUGC-------CGUG--CGCGCUUGCaa -5'
12212 3' -57.6 NC_003309.1 + 10684 0.68 0.458037
Target:  5'- cUG-CGCGGCGGC-CGUcucGCGGGCGa- -3'
miRNA:   3'- uACaGCGCUGCCGuGCG---CGCUUGCaa -5'
12212 3' -57.6 NC_003309.1 + 26407 0.68 0.448201
Target:  5'- -aGUCGuCGAaacaguCGGCAaccgcCGCGCGGACGg- -3'
miRNA:   3'- uaCAGC-GCU------GCCGU-----GCGCGCUUGCaa -5'
12212 3' -57.6 NC_003309.1 + 10734 0.68 0.438482
Target:  5'- -cGUCGCuGCuGCGCgaGCGCGAGCGa- -3'
miRNA:   3'- uaCAGCGcUGcCGUG--CGCGCUUGCaa -5'
12212 3' -57.6 NC_003309.1 + 14549 0.68 0.428886
Target:  5'- cUGUUGCaccGACGGCGauuuccugcgccUGCGUGAACGUc -3'
miRNA:   3'- uACAGCG---CUGCCGU------------GCGCGCUUGCAa -5'
12212 3' -57.6 NC_003309.1 + 15330 0.69 0.365354
Target:  5'- -cGUCgGCGAUGGCugcuGCGCGuCGGAUGUc -3'
miRNA:   3'- uaCAG-CGCUGCCG----UGCGC-GCUUGCAa -5'
12212 3' -57.6 NC_003309.1 + 22472 0.69 0.365354
Target:  5'- -cGaCGCGGCGGCAuCGUGCGcGGCGa- -3'
miRNA:   3'- uaCaGCGCUGCCGU-GCGCGC-UUGCaa -5'
12212 3' -57.6 NC_003309.1 + 27936 0.73 0.204747
Target:  5'- -cGUCGCGGCgGGCACGCGCaauuGAuccguCGUUg -3'
miRNA:   3'- uaCAGCGCUG-CCGUGCGCG----CUu----GCAA- -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.