miRNA display CGI


Results 1 - 20 of 37 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
26572 5' -55.8 NC_005357.1 + 18975 0.66 0.653705
Target:  5'- gCGGACgACGUaacgccaGUCGCGCagGGUCagGCCGa -3'
miRNA:   3'- -GUUUGgUGCA-------CAGCGCG--CUAGg-CGGC- -5'
26572 5' -55.8 NC_005357.1 + 37111 0.66 0.632679
Target:  5'- --cGCCACGUGcUCGCGgccuacggccuCGAcCUGCCa -3'
miRNA:   3'- guuUGGUGCAC-AGCGC-----------GCUaGGCGGc -5'
26572 5' -55.8 NC_005357.1 + 24543 0.66 0.632679
Target:  5'- -uGACCGCGUgGUCGCGCaGcgCgGCg- -3'
miRNA:   3'- guUUGGUGCA-CAGCGCG-CuaGgCGgc -5'
26572 5' -55.8 NC_005357.1 + 25600 0.66 0.632679
Target:  5'- cCGAACUAUGcGcCGCGUGAacugcgCCGCCu -3'
miRNA:   3'- -GUUUGGUGCaCaGCGCGCUa-----GGCGGc -5'
26572 5' -55.8 NC_005357.1 + 35327 0.66 0.621608
Target:  5'- gCAGuCCAuCGUG-CGCGUGggCgCGCCGu -3'
miRNA:   3'- -GUUuGGU-GCACaGCGCGCuaG-GCGGC- -5'
26572 5' -55.8 NC_005357.1 + 9394 0.66 0.621608
Target:  5'- -cAGCCACugcaUGUCGCGCaggCCGCgGg -3'
miRNA:   3'- guUUGGUGc---ACAGCGCGcuaGGCGgC- -5'
26572 5' -55.8 NC_005357.1 + 10859 0.66 0.620501
Target:  5'- gCAGGCCcuGCGUggcuucgGUCgGCGCGAUgCGCgCGg -3'
miRNA:   3'- -GUUUGG--UGCA-------CAG-CGCGCUAgGCG-GC- -5'
26572 5' -55.8 NC_005357.1 + 24652 0.66 0.620501
Target:  5'- gCGGGCCAgGaugguguUGUCGCGC---CCGCCGc -3'
miRNA:   3'- -GUUUGGUgC-------ACAGCGCGcuaGGCGGC- -5'
26572 5' -55.8 NC_005357.1 + 1096 0.66 0.610545
Target:  5'- --uGCCuuggcCGUGUCGCGCGGcaugucgcgcaUCgGCCc -3'
miRNA:   3'- guuUGGu----GCACAGCGCGCU-----------AGgCGGc -5'
26572 5' -55.8 NC_005357.1 + 18346 0.67 0.599502
Target:  5'- --uGCC-CGUGcccCGCGCGGUC-GCCGc -3'
miRNA:   3'- guuUGGuGCACa--GCGCGCUAGgCGGC- -5'
26572 5' -55.8 NC_005357.1 + 20241 0.67 0.599502
Target:  5'- cCAGAUCACG-GUCGCGCagauGGUgCGCg- -3'
miRNA:   3'- -GUUUGGUGCaCAGCGCG----CUAgGCGgc -5'
26572 5' -55.8 NC_005357.1 + 2338 0.67 0.599502
Target:  5'- aGAAgUGCGUGgCGCGCG-UgCGCCGc -3'
miRNA:   3'- gUUUgGUGCACaGCGCGCuAgGCGGC- -5'
26572 5' -55.8 NC_005357.1 + 32292 0.67 0.577508
Target:  5'- --cACCAgCGcGUUGCGCGAccucaucgCCGCCa -3'
miRNA:   3'- guuUGGU-GCaCAGCGCGCUa-------GGCGGc -5'
26572 5' -55.8 NC_005357.1 + 36812 0.67 0.577508
Target:  5'- --cGCCGCGccaCGCGCGAaacgcaccCCGCCGa -3'
miRNA:   3'- guuUGGUGCacaGCGCGCUa-------GGCGGC- -5'
26572 5' -55.8 NC_005357.1 + 26598 0.67 0.54488
Target:  5'- aCGGACgGCGUGUucgaguccUGCGCGGUggUgGCCGa -3'
miRNA:   3'- -GUUUGgUGCACA--------GCGCGCUA--GgCGGC- -5'
26572 5' -55.8 NC_005357.1 + 2574 0.67 0.54488
Target:  5'- -cGGCCcagcGCGUG-CGCGCGcuugCCGCCc -3'
miRNA:   3'- guUUGG----UGCACaGCGCGCua--GGCGGc -5'
26572 5' -55.8 NC_005357.1 + 1034 0.68 0.533061
Target:  5'- aAGGCCACGgccggcggcagcaUGUCGcCGCGAaCCGgCGu -3'
miRNA:   3'- gUUUGGUGC-------------ACAGC-GCGCUaGGCgGC- -5'
26572 5' -55.8 NC_005357.1 + 27698 0.68 0.52346
Target:  5'- aCAGGCCGCGcGcCGgcaGCGGcucgCCGCCGg -3'
miRNA:   3'- -GUUUGGUGCaCaGCg--CGCUa---GGCGGC- -5'
26572 5' -55.8 NC_005357.1 + 22930 0.68 0.50237
Target:  5'- aAGACCACGguUCGCaGCGGcCUGCCa -3'
miRNA:   3'- gUUUGGUGCacAGCG-CGCUaGGCGGc -5'
26572 5' -55.8 NC_005357.1 + 26161 0.68 0.491965
Target:  5'- ---uCCGgGUGgccgCGCGCGAggccaacgccaUCCGCCa -3'
miRNA:   3'- guuuGGUgCACa---GCGCGCU-----------AGGCGGc -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.