miRNA display CGI


Results 1 - 20 of 59 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
12996 3' -50.5 NC_003387.1 + 49928 1.13 0.00154
Target:  5'- cGCCGAAAAGUCAGCAAACGCCCUGAGg -3'
miRNA:   3'- -CGGCUUUUCAGUCGUUUGCGGGACUC- -5'
12996 3' -50.5 NC_003387.1 + 15261 0.84 0.131105
Target:  5'- cGCCGAGAAGUCGGUcGACGCCgagGAGa -3'
miRNA:   3'- -CGGCUUUUCAGUCGuUUGCGGga-CUC- -5'
12996 3' -50.5 NC_003387.1 + 48875 0.79 0.270699
Target:  5'- aGCCGGAucGUCGGCGccgccuaccgcGCGCCCUGAc -3'
miRNA:   3'- -CGGCUUuuCAGUCGUu----------UGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 33888 0.75 0.444714
Target:  5'- gGUCGAugcccGUCAGCAucuuGAUGCCCUGAa -3'
miRNA:   3'- -CGGCUuuu--CAGUCGU----UUGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 6623 0.75 0.444714
Target:  5'- aGCCGGAAcauGUCGGCGGcCGUCUUGGGc -3'
miRNA:   3'- -CGGCUUUu--CAGUCGUUuGCGGGACUC- -5'
12996 3' -50.5 NC_003387.1 + 1581 0.75 0.475782
Target:  5'- cGUCGuGAAAGUCAGac-GCGCCCUGGc -3'
miRNA:   3'- -CGGC-UUUUCAGUCguuUGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 52595 0.75 0.475782
Target:  5'- cGgCGAGcGAGcUCAGCAAacACGCCCUGAc -3'
miRNA:   3'- -CgGCUU-UUC-AGUCGUU--UGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 20248 0.73 0.552047
Target:  5'- cGCCGG--GGUCGacGCAAACGCCCg--- -3'
miRNA:   3'- -CGGCUuuUCAGU--CGUUUGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 14811 0.71 0.654476
Target:  5'- uGCCGAGccacgcGGG-CAGCGGGuCGCCCUcGGGg -3'
miRNA:   3'- -CGGCUU------UUCaGUCGUUU-GCGGGA-CUC- -5'
12996 3' -50.5 NC_003387.1 + 29018 0.71 0.654476
Target:  5'- cCCGuccGAAGUCAGCAAacaGCGCCCc--- -3'
miRNA:   3'- cGGCu--UUUCAGUCGUU---UGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 52635 0.71 0.688608
Target:  5'- uGCaGggGAGUCgagccAGCAAACGCCCg--- -3'
miRNA:   3'- -CGgCuuUUCAG-----UCGUUUGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 21670 0.71 0.699884
Target:  5'- gGCCGAGcacguGUUcGCcGACGCCCUGGc -3'
miRNA:   3'- -CGGCUUuu---CAGuCGuUUGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 15439 0.7 0.711089
Target:  5'- cGCCGAcGAGcgCGcCAGGCGCCUUGAc -3'
miRNA:   3'- -CGGCUuUUCa-GUcGUUUGCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 52667 0.7 0.721103
Target:  5'- cGCCGAucGAgcgcguuugugcaGGUCAGC-GAC-CCCUGGGg -3'
miRNA:   3'- -CGGCU--UU-------------UCAGUCGuUUGcGGGACUC- -5'
12996 3' -50.5 NC_003387.1 + 25556 0.7 0.722211
Target:  5'- cGCCGAGGGG-CAGCAGcuucgcgacGCGCUCgGAu -3'
miRNA:   3'- -CGGCUUUUCaGUCGUU---------UGCGGGaCUc -5'
12996 3' -50.5 NC_003387.1 + 27083 0.7 0.733235
Target:  5'- uGCCGcagcaguGGGUCGGCAucguCGUCCUGGu -3'
miRNA:   3'- -CGGCuu-----UUCAGUCGUuu--GCGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 45843 0.7 0.749561
Target:  5'- aGCCGGugccacgaCGGCGAccggcgucuuguugGCGCCCUGAGc -3'
miRNA:   3'- -CGGCUuuuca---GUCGUU--------------UGCGGGACUC- -5'
12996 3' -50.5 NC_003387.1 + 37832 0.7 0.754941
Target:  5'- gGCCGAgcGAGGUCgGGCAccccuGCGCCCg--- -3'
miRNA:   3'- -CGGCU--UUUCAG-UCGUu----UGCGGGacuc -5'
12996 3' -50.5 NC_003387.1 + 26812 0.7 0.754941
Target:  5'- cGCUGGu-GGUCGGUGAGCgcgccGCCCUGGa -3'
miRNA:   3'- -CGGCUuuUCAGUCGUUUG-----CGGGACUc -5'
12996 3' -50.5 NC_003387.1 + 13668 0.69 0.780264
Target:  5'- cGCCGAGGGcgccgucgacgcuauGUCGGCGuuCGUCCcGAGc -3'
miRNA:   3'- -CGGCUUUU---------------CAGUCGUuuGCGGGaCUC- -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.