miRNA display CGI


Results 1 - 20 of 87 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
5743 5' -56.3 NC_001806.1 + 2516 0.73 0.535136
Target:  5'- cUGGGCGgcGGggGCGGgcccggcgcaCCGCGCGGCGa -3'
miRNA:   3'- uGCUCGU--CCuuCGCCa---------GGUGCGUUGC- -5'
5743 5' -56.3 NC_001806.1 + 2769 0.67 0.844545
Target:  5'- cGCGGGCGGGccugcgccgcGGCGGcCCgggGCGCcGCGg -3'
miRNA:   3'- -UGCUCGUCCu---------UCGCCaGG---UGCGuUGC- -5'
5743 5' -56.3 NC_001806.1 + 2881 0.72 0.56504
Target:  5'- cCGAGCcGGggGC-GUCCGCGCcGCu -3'
miRNA:   3'- uGCUCGuCCuuCGcCAGGUGCGuUGc -5'
5743 5' -56.3 NC_001806.1 + 2990 0.68 0.784072
Target:  5'- cGCGGGgAGGcGGCGGcggCCGC-CAGCGc -3'
miRNA:   3'- -UGCUCgUCCuUCGCCa--GGUGcGUUGC- -5'
5743 5' -56.3 NC_001806.1 + 3280 0.66 0.875056
Target:  5'- cGCGcGCAGGcgGGGCGcGUCgGCGUgcGGCGg -3'
miRNA:   3'- -UGCuCGUCC--UUCGC-CAGgUGCG--UUGC- -5'
5743 5' -56.3 NC_001806.1 + 4672 0.68 0.787734
Target:  5'- gGCGGGCGcGGcgacAGGCGGUCCgugggguccggauacGCGCcGCGu -3'
miRNA:   3'- -UGCUCGU-CC----UUCGCCAGG---------------UGCGuUGC- -5'
5743 5' -56.3 NC_001806.1 + 5377 0.66 0.875056
Target:  5'- gGCGAGCGucugacGGucugucucuGGCGGUCC-CGCGuCGg -3'
miRNA:   3'- -UGCUCGU------CCu--------UCGCCAGGuGCGUuGC- -5'
5743 5' -56.3 NC_001806.1 + 5660 0.69 0.755951
Target:  5'- cAUGGGCGGGgcGCgagggcgggugGGUCCGCGCccCGc -3'
miRNA:   3'- -UGCUCGUCCuuCG-----------CCAGGUGCGuuGC- -5'
5743 5' -56.3 NC_001806.1 + 5764 0.76 0.379946
Target:  5'- aACGGGCAGGggGCGGggcCCGgGCccCGa -3'
miRNA:   3'- -UGCUCGUCCuuCGCCa--GGUgCGuuGC- -5'
5743 5' -56.3 NC_001806.1 + 5938 0.66 0.875056
Target:  5'- gGCGGGCGGGAccgccccaagggGGCGGggccgCCGgGUAAa- -3'
miRNA:   3'- -UGCUCGUCCU------------UCGCCa----GGUgCGUUgc -5'
5743 5' -56.3 NC_001806.1 + 6092 0.69 0.762609
Target:  5'- gGCG-GCGGGggGCGGgucucUCCgGCGCAcauaaaggcccggcGCGa -3'
miRNA:   3'- -UGCuCGUCCuuCGCC-----AGG-UGCGU--------------UGC- -5'
5743 5' -56.3 NC_001806.1 + 9199 0.74 0.486642
Target:  5'- cGCGGGUguggcgAGGgcGCGGUCgACGUGGCGa -3'
miRNA:   3'- -UGCUCG------UCCuuCGCCAGgUGCGUUGC- -5'
5743 5' -56.3 NC_001806.1 + 9235 0.7 0.706032
Target:  5'- gGCGGGCGGucaugucGggGgGGUCCGCGUucguCGg -3'
miRNA:   3'- -UGCUCGUC-------CuuCgCCAGGUGCGuu--GC- -5'
5743 5' -56.3 NC_001806.1 + 9796 0.67 0.852477
Target:  5'- gACGuGCGGGuGGGUGGgcucggccaaaUCCGCGCcGCGc -3'
miRNA:   3'- -UGCuCGUCC-UUCGCC-----------AGGUGCGuUGC- -5'
5743 5' -56.3 NC_001806.1 + 11775 0.68 0.784072
Target:  5'- -gGAGCGGGGauGGUGGUCgAgGgAGCGg -3'
miRNA:   3'- ugCUCGUCCU--UCGCCAGgUgCgUUGC- -5'
5743 5' -56.3 NC_001806.1 + 13252 0.66 0.895694
Target:  5'- cACGAgccGCAGGuacgugccGGCGGUCUcaaACGCGGgGg -3'
miRNA:   3'- -UGCU---CGUCCu-------UCGCCAGG---UGCGUUgC- -5'
5743 5' -56.3 NC_001806.1 + 16292 0.68 0.819627
Target:  5'- -gGGGCAGGAucgccgGGUGGUCCAguCGCcucAGCa -3'
miRNA:   3'- ugCUCGUCCU------UCGCCAGGU--GCG---UUGc -5'
5743 5' -56.3 NC_001806.1 + 19527 0.68 0.827272
Target:  5'- -gGGGCGGGGaucggagAGCGGgacgCCGCGCuuuuACa -3'
miRNA:   3'- ugCUCGUCCU-------UCGCCa---GGUGCGu---UGc -5'
5743 5' -56.3 NC_001806.1 + 19642 1.09 0.002591
Target:  5'- gACGAGCAGGAAGCGGUCCACGCAACGg -3'
miRNA:   3'- -UGCUCGUCCUUCGCCAGGUGCGUUGC- -5'
5743 5' -56.3 NC_001806.1 + 20396 0.66 0.895694
Target:  5'- gGCGGGCGGGAccgGGgGGcCCG-GgGACGg -3'
miRNA:   3'- -UGCUCGUCCU---UCgCCaGGUgCgUUGC- -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.