miRNA display CGI


Results 1 - 20 of 47 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
28770 3' -55.5 NC_006146.1 + 39747 0.66 0.930073
Target:  5'- uGGuGGGUUuCGGCUGgaG-GCUGggGCu -3'
miRNA:   3'- -CC-CCCAGcGUCGAUgaCgCGACuuUG- -5'
28770 3' -55.5 NC_006146.1 + 92084 0.66 0.930073
Target:  5'- uGGGGGgcggCcCGGCcugggGCUGCuGCUGggGg -3'
miRNA:   3'- -CCCCCa---GcGUCGa----UGACG-CGACuuUg -5'
28770 3' -55.5 NC_006146.1 + 39536 0.66 0.924764
Target:  5'- uGGGGGagGCGGCgcaaGgGCUGGAu- -3'
miRNA:   3'- -CCCCCagCGUCGaugaCgCGACUUug -5'
28770 3' -55.5 NC_006146.1 + 159368 0.66 0.919215
Target:  5'- cGGGGG-CGUAGCUgaccgccaGCUcgcaggccGCGCUGuccACg -3'
miRNA:   3'- -CCCCCaGCGUCGA--------UGA--------CGCGACuu-UG- -5'
28770 3' -55.5 NC_006146.1 + 156729 0.66 0.919215
Target:  5'- cGGGGGUC-CAGCcug-GCGCaGAcGCu -3'
miRNA:   3'- -CCCCCAGcGUCGaugaCGCGaCUuUG- -5'
28770 3' -55.5 NC_006146.1 + 146026 0.66 0.913427
Target:  5'- aGGGGG--GCAGCUccuggcACUGCGCguccAGCu -3'
miRNA:   3'- -CCCCCagCGUCGA------UGACGCGacu-UUG- -5'
28770 3' -55.5 NC_006146.1 + 154201 0.67 0.9074
Target:  5'- cGGGGcGUCGUGGac-CUGCGuCUGGcuGGCg -3'
miRNA:   3'- -CCCC-CAGCGUCgauGACGC-GACU--UUG- -5'
28770 3' -55.5 NC_006146.1 + 8302 0.67 0.9074
Target:  5'- cGGGGUCGCu-CU-CUGUGCUGuuagGGCc -3'
miRNA:   3'- cCCCCAGCGucGAuGACGCGACu---UUG- -5'
28770 3' -55.5 NC_006146.1 + 33573 0.67 0.901137
Target:  5'- cGGGGGUCGCcGCguu--CGCUGGu-- -3'
miRNA:   3'- -CCCCCAGCGuCGaugacGCGACUuug -5'
28770 3' -55.5 NC_006146.1 + 18881 0.67 0.901137
Target:  5'- cGGGGGcCuCAGCccccACUGUGCUucuaccGAGACa -3'
miRNA:   3'- -CCCCCaGcGUCGa---UGACGCGA------CUUUG- -5'
28770 3' -55.5 NC_006146.1 + 137909 0.67 0.901137
Target:  5'- cGGGGGUaGCGGCg---GCaCUGAAAUu -3'
miRNA:   3'- -CCCCCAgCGUCGaugaCGcGACUUUG- -5'
28770 3' -55.5 NC_006146.1 + 24844 0.67 0.901137
Target:  5'- -cGGGUCaccaacaaGCAGgUGCUGCaGCUGGAcGCg -3'
miRNA:   3'- ccCCCAG--------CGUCgAUGACG-CGACUU-UG- -5'
28770 3' -55.5 NC_006146.1 + 33403 0.67 0.899857
Target:  5'- gGGGGGUgGCccgccugGGCaccGCUGCGCcgccgcucgguccUGggGCu -3'
miRNA:   3'- -CCCCCAgCG-------UCGa--UGACGCG-------------ACuuUG- -5'
28770 3' -55.5 NC_006146.1 + 132792 0.67 0.894641
Target:  5'- -aGGcUCGCAGCUGCUcaGCaGCUGcAGGCg -3'
miRNA:   3'- ccCCcAGCGUCGAUGA--CG-CGAC-UUUG- -5'
28770 3' -55.5 NC_006146.1 + 38774 0.67 0.887913
Target:  5'- aGGGGGUCGCAGaacaaGUGCuugUGGAAg -3'
miRNA:   3'- -CCCCCAGCGUCgaugaCGCG---ACUUUg -5'
28770 3' -55.5 NC_006146.1 + 9627 0.67 0.887913
Target:  5'- uGGGGGUguaaggcacgCGUGGaUGCcGCGUUGGGACg -3'
miRNA:   3'- -CCCCCA----------GCGUCgAUGaCGCGACUUUG- -5'
28770 3' -55.5 NC_006146.1 + 117998 0.67 0.887913
Target:  5'- cGGGGGgccaCGCAGaccaUGCgGgGCUcGggGCg -3'
miRNA:   3'- -CCCCCa---GCGUCg---AUGaCgCGA-CuuUG- -5'
28770 3' -55.5 NC_006146.1 + 43384 0.67 0.880959
Target:  5'- cGGGGG-CaGCAGCgGCUGCcucugccccgGCUGcGACc -3'
miRNA:   3'- -CCCCCaG-CGUCGaUGACG----------CGACuUUG- -5'
28770 3' -55.5 NC_006146.1 + 156694 0.67 0.873783
Target:  5'- uGGGGGUCG-GGCUGgcCUGCcagGggGCa -3'
miRNA:   3'- -CCCCCAGCgUCGAU--GACGcgaCuuUG- -5'
28770 3' -55.5 NC_006146.1 + 141305 0.67 0.873783
Target:  5'- uGGGGGUCG-GGCUGgcCUGCcagGggGCa -3'
miRNA:   3'- -CCCCCAGCgUCGAU--GACGcgaCuuUG- -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.