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
11981 5' -54.3 NC_003278.1 + 21347 0.66 0.618402
Target:  5'- -aGCGCGccGUCcaGCGCgUCGGCGGCg- -3'
miRNA:   3'- caCGCGUucCAG--UGCG-AGUCGUUGac -5'
11981 5' -54.3 NC_003278.1 + 19400 0.66 0.61724
Target:  5'- -cGCGCAacaggcacGGGUgaaagcaCugGCUCAGCAGaUGg -3'
miRNA:   3'- caCGCGU--------UCCA-------GugCGAGUCGUUgAC- -5'
11981 5' -54.3 NC_003278.1 + 30226 0.66 0.583661
Target:  5'- -cGCGCAGcGUCGCGCugugaaccuUCAGCcGCUc -3'
miRNA:   3'- caCGCGUUcCAGUGCG---------AGUCGuUGAc -5'
11981 5' -54.3 NC_003278.1 + 19876 0.67 0.520082
Target:  5'- -aGCGCAAGGaCgauccgcagaugcagGCGCUgCGGCAACa- -3'
miRNA:   3'- caCGCGUUCCaG---------------UGCGA-GUCGUUGac -5'
11981 5' -54.3 NC_003278.1 + 19284 0.67 0.515637
Target:  5'- -gGCGCGGuGGcucugucgaUCGCGCUgAGCAGCa- -3'
miRNA:   3'- caCGCGUU-CC---------AGUGCGAgUCGUUGac -5'
11981 5' -54.3 NC_003278.1 + 30565 0.68 0.461504
Target:  5'- -cGCGCAGGGUUGcCGCgUCGGCcaccuuCUGg -3'
miRNA:   3'- caCGCGUUCCAGU-GCG-AGUCGuu----GAC- -5'
11981 5' -54.3 NC_003278.1 + 32025 0.69 0.440699
Target:  5'- -aGCGCAGcGUCAacuCGUUCAGCGcCUGg -3'
miRNA:   3'- caCGCGUUcCAGU---GCGAGUCGUuGAC- -5'
11981 5' -54.3 NC_003278.1 + 14617 0.69 0.430498
Target:  5'- -gGaCGCAAGGUgCugGC-CGGCAACg- -3'
miRNA:   3'- caC-GCGUUCCA-GugCGaGUCGUUGac -5'
11981 5' -54.3 NC_003278.1 + 16691 0.69 0.430498
Target:  5'- -aGCuCGAGGUUgguaccacgACGCUCAGC-ACUGa -3'
miRNA:   3'- caCGcGUUCCAG---------UGCGAGUCGuUGAC- -5'
11981 5' -54.3 NC_003278.1 + 29101 0.69 0.429485
Target:  5'- uUGCuGCAGGGccuugUCGCGCaucuguuucugguUCAGCAAUUGg -3'
miRNA:   3'- cACG-CGUUCC-----AGUGCG-------------AGUCGUUGAC- -5'
11981 5' -54.3 NC_003278.1 + 14070 0.69 0.420437
Target:  5'- aUGCGCAgguccaggcGGGUCAgGUgUCGGCuGACUGg -3'
miRNA:   3'- cACGCGU---------UCCAGUgCG-AGUCG-UUGAC- -5'
11981 5' -54.3 NC_003278.1 + 22755 0.69 0.391127
Target:  5'- uUGCGC-AGGUC-CGCUgAGCGggcgcggauGCUGa -3'
miRNA:   3'- cACGCGuUCCAGuGCGAgUCGU---------UGAC- -5'
11981 5' -54.3 NC_003278.1 + 12754 0.7 0.354181
Target:  5'- -aGCGCAAGGcCuACGCcaUCAGCcuCUGg -3'
miRNA:   3'- caCGCGUUCCaG-UGCG--AGUCGuuGAC- -5'
11981 5' -54.3 NC_003278.1 + 8850 0.71 0.336654
Target:  5'- -gGCGaCGAGGUCgGCGUUCuGCAGCa- -3'
miRNA:   3'- caCGC-GUUCCAG-UGCGAGuCGUUGac -5'
11981 5' -54.3 NC_003278.1 + 7011 0.73 0.251693
Target:  5'- -gGCGCGGGG-UACGCUCGGuCAACc- -3'
miRNA:   3'- caCGCGUUCCaGUGCGAGUC-GUUGac -5'
11981 5' -54.3 NC_003278.1 + 19659 0.76 0.155862
Target:  5'- cUGCGCGcgcAGGUCGCGCUCAu--GCUGg -3'
miRNA:   3'- cACGCGU---UCCAGUGCGAGUcguUGAC- -5'
11981 5' -54.3 NC_003278.1 + 13480 1.09 0.000522
Target:  5'- cGUGCGCAAGGUCACGCUCAGCAACUGg -3'
miRNA:   3'- -CACGCGUUCCAGUGCGAGUCGUUGAC- -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.