miRNA display CGI


Results 1 - 20 of 38 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
11410 3' -60.8 NC_003085.1 + 25569 0.66 0.412614
Target:  5'- uUCUG-CGcGUGGac-GGCUGCUGCCGu -3'
miRNA:   3'- uGGACaGC-CACCgcuUCGGCGACGGC- -5'
11410 3' -60.8 NC_003085.1 + 24141 0.66 0.412614
Target:  5'- cACCuUGUCGGUGGCcaccacGgcGUCGUccaccugGCCGg -3'
miRNA:   3'- -UGG-ACAGCCACCG------CuuCGGCGa------CGGC- -5'
11410 3' -60.8 NC_003085.1 + 24746 0.66 0.403564
Target:  5'- --gUGUUGGcacccGCGAAGCCGCcgaUGCCGc -3'
miRNA:   3'- uggACAGCCac---CGCUUCGGCG---ACGGC- -5'
11410 3' -60.8 NC_003085.1 + 27784 0.66 0.403564
Target:  5'- cACCUcGUCcuGGaGGCgcuGAAGCCggauGCUGCCGa -3'
miRNA:   3'- -UGGA-CAG--CCaCCG---CUUCGG----CGACGGC- -5'
11410 3' -60.8 NC_003085.1 + 28607 0.66 0.403564
Target:  5'- cGCCgGUgGuGUGGCGcucgcuGCUGCgGCCGg -3'
miRNA:   3'- -UGGaCAgC-CACCGCuu----CGGCGaCGGC- -5'
11410 3' -60.8 NC_003085.1 + 13715 0.66 0.402666
Target:  5'- aGCCUGUUccuguuccgucgaGGUcacGCGAAGCCGCccaacgggagGCCGu -3'
miRNA:   3'- -UGGACAG-------------CCAc--CGCUUCGGCGa---------CGGC- -5'
11410 3' -60.8 NC_003085.1 + 10758 0.66 0.39464
Target:  5'- cACCgGUaCGuG-GGCGAAGCCGCguUGUCa -3'
miRNA:   3'- -UGGaCA-GC-CaCCGCUUCGGCG--ACGGc -5'
11410 3' -60.8 NC_003085.1 + 35931 0.66 0.383233
Target:  5'- aACCcGUCGGgguagcgcuuGCGGAgcuucucgacguucGCCGCUGCCa -3'
miRNA:   3'- -UGGaCAGCCac--------CGCUU--------------CGGCGACGGc -5'
11410 3' -60.8 NC_003085.1 + 12817 0.66 0.377181
Target:  5'- cCCUGaCGGUccgGGCGGaugcgcuguuGGCCGCcaaUGCCa -3'
miRNA:   3'- uGGACaGCCA---CCGCU----------UCGGCG---ACGGc -5'
11410 3' -60.8 NC_003085.1 + 48515 0.66 0.377181
Target:  5'- gACCUccuucUCGGcGGCGAGGgCGCggGCCu -3'
miRNA:   3'- -UGGAc----AGCCaCCGCUUCgGCGa-CGGc -5'
11410 3' -60.8 NC_003085.1 + 18004 0.66 0.368649
Target:  5'- uCCUGUCcGacgGcGCGAGGCCGUacgUGCCa -3'
miRNA:   3'- uGGACAGcCa--C-CGCUUCGGCG---ACGGc -5'
11410 3' -60.8 NC_003085.1 + 40215 0.67 0.357756
Target:  5'- cACCUGgcuggcccucgccaUUGGUGGCGGGcucuucGCCGCcgggGCCu -3'
miRNA:   3'- -UGGAC--------------AGCCACCGCUU------CGGCGa---CGGc -5'
11410 3' -60.8 NC_003085.1 + 15839 0.67 0.351985
Target:  5'- cGCCUGU-GGUGGCccagacuucGAAgGCCGUUGgCGu -3'
miRNA:   3'- -UGGACAgCCACCG---------CUU-CGGCGACgGC- -5'
11410 3' -60.8 NC_003085.1 + 20345 0.67 0.351985
Target:  5'- cGCCUGguucCGcGccGCGucGCCGCUGCUGa -3'
miRNA:   3'- -UGGACa---GC-CacCGCuuCGGCGACGGC- -5'
11410 3' -60.8 NC_003085.1 + 11358 0.67 0.351166
Target:  5'- cACCUccgagacGaUGGUGGCGgcGCCggacaccugcGCUGCCGu -3'
miRNA:   3'- -UGGA-------CaGCCACCGCuuCGG----------CGACGGC- -5'
11410 3' -60.8 NC_003085.1 + 23020 0.67 0.343856
Target:  5'- uCCUGgcgcccagaGGUucgcgagcagugGGCGAAGCUGCcGCCGg -3'
miRNA:   3'- uGGACag-------CCA------------CCGCUUCGGCGaCGGC- -5'
11410 3' -60.8 NC_003085.1 + 8216 0.67 0.328006
Target:  5'- aGCCUGccgCGcGUGGCguuguaGAGGCCGCacgucaccgUGCCa -3'
miRNA:   3'- -UGGACa--GC-CACCG------CUUCGGCG---------ACGGc -5'
11410 3' -60.8 NC_003085.1 + 17523 0.68 0.312703
Target:  5'- gACCUGUcCGGUGaUGAaggcaccgGGCUGCUGCUc -3'
miRNA:   3'- -UGGACA-GCCACcGCU--------UCGGCGACGGc -5'
11410 3' -60.8 NC_003085.1 + 12405 0.68 0.290774
Target:  5'- -gCUGcUCGacccGGCGggGCCGCUGCg- -3'
miRNA:   3'- ugGAC-AGCca--CCGCuuCGGCGACGgc -5'
11410 3' -60.8 NC_003085.1 + 14919 0.68 0.283737
Target:  5'- gGCCgGcUGGUGGCGcucgcGGCCGCUGUg- -3'
miRNA:   3'- -UGGaCaGCCACCGCu----UCGGCGACGgc -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.