miRNA display CGI


Results 1 - 20 of 55 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
5578 3' -56.9 NC_001806.1 + 2771 0.68 0.829461
Target:  5'- -cGGGCGgGCCUGcgccgcggcGGCCCGGggcgCCg -3'
miRNA:   3'- gaCCCGCaUGGGCa--------CUGGGCCaaa-GG- -5'
5578 3' -56.9 NC_001806.1 + 4184 0.68 0.786311
Target:  5'- -gGGGCGgggGCCCGgcgccgGGCCaCGGc-UCCc -3'
miRNA:   3'- gaCCCGCa--UGGGCa-----CUGG-GCCaaAGG- -5'
5578 3' -56.9 NC_001806.1 + 4405 0.71 0.657221
Target:  5'- uUGGGCGcgGCCUcggagaggggggGUGGCCCGGgcgggggcggcgUCCg -3'
miRNA:   3'- gACCCGCa-UGGG------------CACUGGGCCaa----------AGG- -5'
5578 3' -56.9 NC_001806.1 + 4736 0.66 0.889223
Target:  5'- ---cGCGgcCCCGggccggGGCCCGGUcgCCg -3'
miRNA:   3'- gaccCGCauGGGCa-----CUGGGCCAaaGG- -5'
5578 3' -56.9 NC_001806.1 + 5091 0.79 0.271738
Target:  5'- gUGGGCGgcgGCCCGUcgguggGGCCCGGggagCCg -3'
miRNA:   3'- gACCCGCa--UGGGCA------CUGGGCCaaa-GG- -5'
5578 3' -56.9 NC_001806.1 + 5598 0.66 0.902083
Target:  5'- -cGGGg--GCCCGUGGCCgCGGc--CCg -3'
miRNA:   3'- gaCCCgcaUGGGCACUGG-GCCaaaGG- -5'
5578 3' -56.9 NC_001806.1 + 5773 0.68 0.829461
Target:  5'- -gGGGCGggGCCCG-GGCCCcgacUUCCc -3'
miRNA:   3'- gaCCCGCa-UGGGCaCUGGGcca-AAGG- -5'
5578 3' -56.9 NC_001806.1 + 7354 0.68 0.812666
Target:  5'- -aGGGU--ACCgCGUGACCCcaGGgaUCCa -3'
miRNA:   3'- gaCCCGcaUGG-GCACUGGG--CCaaAGG- -5'
5578 3' -56.9 NC_001806.1 + 13016 0.67 0.860927
Target:  5'- -gGGGCcuuggGCCCGUGccACCCGGcgaUCUu -3'
miRNA:   3'- gaCCCGca---UGGGCAC--UGGGCCaa-AGG- -5'
5578 3' -56.9 NC_001806.1 + 13178 0.72 0.561307
Target:  5'- -aGGGCGUacuuacaggaGCCCuUGGCUCGGUgcUCCa -3'
miRNA:   3'- gaCCCGCA----------UGGGcACUGGGCCAa-AGG- -5'
5578 3' -56.9 NC_001806.1 + 17802 0.66 0.889223
Target:  5'- gUGGGcCGUGCC---GACUCGGUUUUUg -3'
miRNA:   3'- gACCC-GCAUGGgcaCUGGGCCAAAGG- -5'
5578 3' -56.9 NC_001806.1 + 18426 0.73 0.552452
Target:  5'- uCUGcGGCGcgACCCGccccagaaucggaugGGCCCGGgcgUUCCa -3'
miRNA:   3'- -GAC-CCGCa-UGGGCa--------------CUGGGCCa--AAGG- -5'
5578 3' -56.9 NC_001806.1 + 18974 0.66 0.882465
Target:  5'- -cGGGCG-ACCCGcagGACCCGa----- -3'
miRNA:   3'- gaCCCGCaUGGGCa--CUGGGCcaaagg -5'
5578 3' -56.9 NC_001806.1 + 19112 0.67 0.853343
Target:  5'- -gGGGUGgggGCCCG-GGgCUGcGUUUCCc -3'
miRNA:   3'- gaCCCGCa--UGGGCaCUgGGC-CAAAGG- -5'
5578 3' -56.9 NC_001806.1 + 20361 0.66 0.882465
Target:  5'- uUGGGCc-GCCCGccgucccguUGGuCCCGGcgUCCg -3'
miRNA:   3'- gACCCGcaUGGGC---------ACU-GGGCCaaAGG- -5'
5578 3' -56.9 NC_001806.1 + 20398 0.71 0.671216
Target:  5'- -cGGGCGggaCCGgggGGCCCGGggacggCCa -3'
miRNA:   3'- gaCCCGCaugGGCa--CUGGGCCaaa---GG- -5'
5578 3' -56.9 NC_001806.1 + 22047 0.66 0.882465
Target:  5'- -cGGG-G-AgCCGUGGCCCGGcg-CCg -3'
miRNA:   3'- gaCCCgCaUgGGCACUGGGCCaaaGG- -5'
5578 3' -56.9 NC_001806.1 + 27063 0.71 0.64118
Target:  5'- -gGGGCccgagGCCCGUG-CCCGGg--CCc -3'
miRNA:   3'- gaCCCGca---UGGGCACuGGGCCaaaGG- -5'
5578 3' -56.9 NC_001806.1 + 31053 0.66 0.908178
Target:  5'- -gGGGCGUACgUG-GuCCUGGUggaCCa -3'
miRNA:   3'- gaCCCGCAUGgGCaCuGGGCCAaa-GG- -5'
5578 3' -56.9 NC_001806.1 + 38636 0.68 0.820306
Target:  5'- -cGGGUGguggauguccuuaUACCCGUgGugCCGGgg-CCg -3'
miRNA:   3'- gaCCCGC-------------AUGGGCA-CugGGCCaaaGG- -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.