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
22949 3' -51.8 NC_005137.2 + 16763 0.66 0.980045
Target:  5'- aCAAGCU-UGCUgacGGCACcGcGUUUGCCa -3'
miRNA:   3'- aGUUUGGcACGG---UCGUGuC-CAAACGG- -5'
22949 3' -51.8 NC_005137.2 + 59474 0.66 0.980045
Target:  5'- ---cACCG-GCacgaUAGUACAGGgaUGCCg -3'
miRNA:   3'- aguuUGGCaCG----GUCGUGUCCaaACGG- -5'
22949 3' -51.8 NC_005137.2 + 98722 0.66 0.975107
Target:  5'- aCAGugCGUGauguaCCAGCGCG---UUGCCa -3'
miRNA:   3'- aGUUugGCAC-----GGUCGUGUccaAACGG- -5'
22949 3' -51.8 NC_005137.2 + 114355 0.67 0.965442
Target:  5'- aUCAAACCGauUGUCGGCAaucgcuuccauaAGGU-UGCUg -3'
miRNA:   3'- -AGUUUGGC--ACGGUCGUg-----------UCCAaACGG- -5'
22949 3' -51.8 NC_005137.2 + 43767 0.69 0.920412
Target:  5'- aCGAACgcuacuaccagCGcGCCAGC--GGGUUUGCCg -3'
miRNA:   3'- aGUUUG-----------GCaCGGUCGugUCCAAACGG- -5'
22949 3' -51.8 NC_005137.2 + 99410 0.69 0.914427
Target:  5'- gUUAAACUGUGCCcguGGCaACGGGgcgcgcGCCc -3'
miRNA:   3'- -AGUUUGGCACGG---UCG-UGUCCaaa---CGG- -5'
22949 3' -51.8 NC_005137.2 + 48621 0.69 0.894924
Target:  5'- uUCGAuacccgucACgGUGCC-GUACAGGUcagGCCa -3'
miRNA:   3'- -AGUU--------UGgCACGGuCGUGUCCAaa-CGG- -5'
22949 3' -51.8 NC_005137.2 + 19705 0.69 0.894924
Target:  5'- uUCAGACgGguuggcgGCgGGCACAGaacgccuucGUUUGCCu -3'
miRNA:   3'- -AGUUUGgCa------CGgUCGUGUC---------CAAACGG- -5'
22949 3' -51.8 NC_005137.2 + 50621 0.7 0.880663
Target:  5'- cUCAuACac-GCCGGCACGGGgcUGCa -3'
miRNA:   3'- -AGUuUGgcaCGGUCGUGUCCaaACGg -5'
22949 3' -51.8 NC_005137.2 + 74276 0.72 0.805327
Target:  5'- cCGuGCCGUGCCGGCGCGaaa--GCCa -3'
miRNA:   3'- aGUuUGGCACGGUCGUGUccaaaCGG- -5'
22949 3' -51.8 NC_005137.2 + 74126 0.72 0.795982
Target:  5'- uUCGcGCCG-GCaCGGCACGGG-UUGCa -3'
miRNA:   3'- -AGUuUGGCaCG-GUCGUGUCCaAACGg -5'
22949 3' -51.8 NC_005137.2 + 21717 0.72 0.776818
Target:  5'- uUCAAACUGUaCgGGUACAGGg-UGCCg -3'
miRNA:   3'- -AGUUUGGCAcGgUCGUGUCCaaACGG- -5'
22949 3' -51.8 NC_005137.2 + 78726 0.74 0.695342
Target:  5'- gCAAACCuGUGCUGGCAC-GGUUUGaCg -3'
miRNA:   3'- aGUUUGG-CACGGUCGUGuCCAAACgG- -5'
22949 3' -51.8 NC_005137.2 + 104226 0.74 0.663548
Target:  5'- aCGAGCCG-GCCAGCACgacgaAGGc--GCCa -3'
miRNA:   3'- aGUUUGGCaCGGUCGUG-----UCCaaaCGG- -5'
22949 3' -51.8 NC_005137.2 + 93470 0.76 0.588824
Target:  5'- aCGGugCGcGCCAGCGCc-GUUUGCCg -3'
miRNA:   3'- aGUUugGCaCGGUCGUGucCAAACGG- -5'
22949 3' -51.8 NC_005137.2 + 78571 1.14 0.002728
Target:  5'- gUCAAACCGUGCCAGCACAGGUUUGCCa -3'
miRNA:   3'- -AGUUUGGCACGGUCGUGUCCAAACGG- -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.