miRNA display CGI


Results 1 - 16 of 16 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
13120 3' -58.2 NC_003401.1 + 23472 0.66 0.787621
Target:  5'- -gGGUGCAGGGCGGggGCgUGCUugugcaaacGCCCa- -3'
miRNA:   3'- aaCCGUGUCUCGCC--UG-ACGA---------UGGGcc -5'
13120 3' -58.2 NC_003401.1 + 12055 0.66 0.786702
Target:  5'- -cGGCACcGGuCGGAUgaccucuUGCUugCCGGu -3'
miRNA:   3'- aaCCGUGuCUcGCCUG-------ACGAugGGCC- -5'
13120 3' -58.2 NC_003401.1 + 132488 0.66 0.778369
Target:  5'- -nGGCcgGCGGGGCGGAggGCcgggAgCCGGg -3'
miRNA:   3'- aaCCG--UGUCUCGCCUgaCGa---UgGGCC- -5'
13120 3' -58.2 NC_003401.1 + 107733 0.66 0.768985
Target:  5'- -gGGCAacgcuCGGGGCGGcCgaGCcggACCCGGa -3'
miRNA:   3'- aaCCGU-----GUCUCGCCuGa-CGa--UGGGCC- -5'
13120 3' -58.2 NC_003401.1 + 128200 0.66 0.766146
Target:  5'- -aGGUGCAGGuGCGcugcaaaacauucuGuuccaugccacGCUGCUGCCCGGg -3'
miRNA:   3'- aaCCGUGUCU-CGC--------------C-----------UGACGAUGGGCC- -5'
13120 3' -58.2 NC_003401.1 + 96864 0.66 0.748892
Target:  5'- cUGGCGCgacugucuaggauGGAcGCGGACU-CUGCCCc- -3'
miRNA:   3'- aACCGUG-------------UCU-CGCCUGAcGAUGGGcc -5'
13120 3' -58.2 NC_003401.1 + 8875 0.67 0.730317
Target:  5'- -gGGCGCGGcGUGGACcGCaACCUGu -3'
miRNA:   3'- aaCCGUGUCuCGCCUGaCGaUGGGCc -5'
13120 3' -58.2 NC_003401.1 + 96016 0.68 0.680127
Target:  5'- uUUGGCACAGAauaauggaGGACaGgUGCCUGGu -3'
miRNA:   3'- -AACCGUGUCUcg------CCUGaCgAUGGGCC- -5'
13120 3' -58.2 NC_003401.1 + 118286 0.68 0.639203
Target:  5'- -cGGUGCccauGGGGCGGcuuUUGCcGCCCGGg -3'
miRNA:   3'- aaCCGUG----UCUCGCCu--GACGaUGGGCC- -5'
13120 3' -58.2 NC_003401.1 + 125170 0.68 0.639203
Target:  5'- cUGGCAguGGGCGuACgUGCcGCCCGa -3'
miRNA:   3'- aACCGUguCUCGCcUG-ACGaUGGGCc -5'
13120 3' -58.2 NC_003401.1 + 49525 0.68 0.628937
Target:  5'- -gGGCACGGuuucucGCGGAUguggGUUcaacgGCCCGGg -3'
miRNA:   3'- aaCCGUGUCu-----CGCCUGa---CGA-----UGGGCC- -5'
13120 3' -58.2 NC_003401.1 + 30833 0.69 0.608421
Target:  5'- -aGGCACAGcGCGGcCUGCgugUCCGa -3'
miRNA:   3'- aaCCGUGUCuCGCCuGACGau-GGGCc -5'
13120 3' -58.2 NC_003401.1 + 84049 0.7 0.53754
Target:  5'- -gGGCAagGGGGCGGGCaGCggcauuCCCGGc -3'
miRNA:   3'- aaCCGUg-UCUCGCCUGaCGau----GGGCC- -5'
13120 3' -58.2 NC_003401.1 + 132699 0.71 0.469717
Target:  5'- -cGGCGCGGGGCGcGACcgaggGC--CCCGGg -3'
miRNA:   3'- aaCCGUGUCUCGC-CUGa----CGauGGGCC- -5'
13120 3' -58.2 NC_003401.1 + 132524 0.75 0.270752
Target:  5'- -cGGCGCGGGGCGGccgggggcggcgGCcGCggGCCCGGg -3'
miRNA:   3'- aaCCGUGUCUCGCC------------UGaCGa-UGGGCC- -5'
13120 3' -58.2 NC_003401.1 + 30728 1.07 0.001806
Target:  5'- gUUGGCACAGAGCGGACUGCUACCCGGu -3'
miRNA:   3'- -AACCGUGUCUCGCCUGACGAUGGGCC- -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.