miRNA display CGI


Results 1 - 20 of 25 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
8062 5' -54.8 NC_001973.1 + 133277 0.66 0.94575
Target:  5'- --cUCGGCCGCGG-C-CGAGaacGCGg -3'
miRNA:   3'- uuuAGCCGGUGCCcGuGCUCaaaCGC- -5'
8062 5' -54.8 NC_001973.1 + 43866 0.66 0.941177
Target:  5'- aAAGUCaGGCC--GGGCAUGAGgccGCGu -3'
miRNA:   3'- -UUUAG-CCGGugCCCGUGCUCaaaCGC- -5'
8062 5' -54.8 NC_001973.1 + 85724 0.66 0.941177
Target:  5'- --cUCGGCCgcACGGcGUugGAGUUggucGCc -3'
miRNA:   3'- uuuAGCCGG--UGCC-CGugCUCAAa---CGc -5'
8062 5' -54.8 NC_001973.1 + 133451 0.66 0.936362
Target:  5'- gAAGUCGGCgCGCGGGuCGCGcacggaGCGc -3'
miRNA:   3'- -UUUAGCCG-GUGCCC-GUGCucaaa-CGC- -5'
8062 5' -54.8 NC_001973.1 + 145713 0.66 0.925999
Target:  5'- --uUUGuGCCGauCGGGCGCauAGUUUGCGg -3'
miRNA:   3'- uuuAGC-CGGU--GCCCGUGc-UCAAACGC- -5'
8062 5' -54.8 NC_001973.1 + 21543 0.66 0.920451
Target:  5'- --cUCGGCguCGGGCGCGccguGGUcccgGCGc -3'
miRNA:   3'- uuuAGCCGguGCCCGUGC----UCAaa--CGC- -5'
8062 5' -54.8 NC_001973.1 + 144748 0.66 0.920451
Target:  5'- gGAggCGGCCgaggagGCGGcGCGCGAGgacaagUGCu -3'
miRNA:   3'- -UUuaGCCGG------UGCC-CGUGCUCaa----ACGc -5'
8062 5' -54.8 NC_001973.1 + 41772 0.66 0.918738
Target:  5'- -cGUCaaGCCgcugcccgagaacgGCGGGCGCGAGUgggUGCu -3'
miRNA:   3'- uuUAGc-CGG--------------UGCCCGUGCUCAa--ACGc -5'
8062 5' -54.8 NC_001973.1 + 55234 0.67 0.914658
Target:  5'- ---gCGGCgGCGGGCGgCGAGag-GCc -3'
miRNA:   3'- uuuaGCCGgUGCCCGU-GCUCaaaCGc -5'
8062 5' -54.8 NC_001973.1 + 74688 0.67 0.889074
Target:  5'- ---aCGGgCACGGGCGCGcaUUUcGCGg -3'
miRNA:   3'- uuuaGCCgGUGCCCGUGCucAAA-CGC- -5'
8062 5' -54.8 NC_001973.1 + 63632 0.68 0.882089
Target:  5'- cAAAUCGGCCGCGuGGgGCGGc---GCGc -3'
miRNA:   3'- -UUUAGCCGGUGC-CCgUGCUcaaaCGC- -5'
8062 5' -54.8 NC_001973.1 + 54036 0.68 0.874878
Target:  5'- -cGUCGGgCAgguuguUGGGCACGGGgccgUGCa -3'
miRNA:   3'- uuUAGCCgGU------GCCCGUGCUCaa--ACGc -5'
8062 5' -54.8 NC_001973.1 + 39413 0.68 0.85193
Target:  5'- cAGGUCGGCCGCGgugaGGCGCGucgcGUccaggGCGa -3'
miRNA:   3'- -UUUAGCCGGUGC----CCGUGCu---CAaa---CGC- -5'
8062 5' -54.8 NC_001973.1 + 78629 0.68 0.85193
Target:  5'- ----aGGCCGCGGGCGCucGag-GCGa -3'
miRNA:   3'- uuuagCCGGUGCCCGUGcuCaaaCGC- -5'
8062 5' -54.8 NC_001973.1 + 30481 0.69 0.835602
Target:  5'- cGGcgUGGCCGCagucGGGCACGAcggUGCGc -3'
miRNA:   3'- -UUuaGCCGGUG----CCCGUGCUcaaACGC- -5'
8062 5' -54.8 NC_001973.1 + 46025 0.69 0.835602
Target:  5'- -uGUCuGGCCAUGGGCGCGcugcUGCu -3'
miRNA:   3'- uuUAG-CCGGUGCCCGUGCucaaACGc -5'
8062 5' -54.8 NC_001973.1 + 31083 0.69 0.809707
Target:  5'- gAAGUUGGCCAgcgaGGGCGCGuuGGUgaugUUGUGg -3'
miRNA:   3'- -UUUAGCCGGUg---CCCGUGC--UCA----AACGC- -5'
8062 5' -54.8 NC_001973.1 + 56215 0.7 0.763371
Target:  5'- -cGUCGGCgC-CGGGCGCGA---UGCGu -3'
miRNA:   3'- uuUAGCCG-GuGCCCGUGCUcaaACGC- -5'
8062 5' -54.8 NC_001973.1 + 132543 0.71 0.734063
Target:  5'- gGGcgCGGCgGCGGGCuCGAGcgcgGCGg -3'
miRNA:   3'- -UUuaGCCGgUGCCCGuGCUCaaa-CGC- -5'
8062 5' -54.8 NC_001973.1 + 4646 0.72 0.673256
Target:  5'- -uGUCGGCgGCGGGCGCc-GUcgGCGa -3'
miRNA:   3'- uuUAGCCGgUGCCCGUGcuCAaaCGC- -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.