miRNA display CGI


Results 1 - 20 of 66 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
21351 3' -55.9 NC_004778.3 + 31233 0.66 0.876181
Target:  5'- --gAGGCGuUGCuGUCcguGGCGCgCGcACCUCg -3'
miRNA:   3'- auaUCUGC-ACG-CAG---UCGCG-GC-UGGAG- -5'
21351 3' -55.9 NC_004778.3 + 66850 0.66 0.861051
Target:  5'- --cAGACGUucucgaaaaGCGaggUCGGCGCCGACg-- -3'
miRNA:   3'- auaUCUGCA---------CGC---AGUCGCGGCUGgag -5'
21351 3' -55.9 NC_004778.3 + 68254 0.66 0.845061
Target:  5'- gGUGGAUGcUGCGUCgcuGGCGCuCGGgCUg -3'
miRNA:   3'- aUAUCUGC-ACGCAG---UCGCG-GCUgGAg -5'
21351 3' -55.9 NC_004778.3 + 121596 0.67 0.836761
Target:  5'- ----uAUGUGCG-CGGCGCCGACg-- -3'
miRNA:   3'- auaucUGCACGCaGUCGCGGCUGgag -5'
21351 3' -55.9 NC_004778.3 + 85509 0.67 0.836761
Target:  5'- cAUGGACGcggGCGUuugCGGCGgCGAUgUCa -3'
miRNA:   3'- aUAUCUGCa--CGCA---GUCGCgGCUGgAG- -5'
21351 3' -55.9 NC_004778.3 + 47130 0.67 0.836761
Target:  5'- --aAGcGCGUcgGCGUgAGCGCCGGCgCUUu -3'
miRNA:   3'- auaUC-UGCA--CGCAgUCGCGGCUG-GAG- -5'
21351 3' -55.9 NC_004778.3 + 123079 0.67 0.834232
Target:  5'- --cGGACGUGUuuaaaaauauuuuaGUCacguguugguGGCGCCGACCcCg -3'
miRNA:   3'- auaUCUGCACG--------------CAG----------UCGCGGCUGGaG- -5'
21351 3' -55.9 NC_004778.3 + 125356 0.67 0.819586
Target:  5'- -------uUGCGcCgGGCGCCGACCUCg -3'
miRNA:   3'- auaucugcACGCaG-UCGCGGCUGGAG- -5'
21351 3' -55.9 NC_004778.3 + 94058 0.67 0.818709
Target:  5'- --cGGAUGUGCGUUauauacgAGCGCCGAa--- -3'
miRNA:   3'- auaUCUGCACGCAG-------UCGCGGCUggag -5'
21351 3' -55.9 NC_004778.3 + 99817 0.67 0.810729
Target:  5'- -uUAaACaUGCGcCAGCGCCGACCc- -3'
miRNA:   3'- auAUcUGcACGCaGUCGCGGCUGGag -5'
21351 3' -55.9 NC_004778.3 + 8901 0.68 0.773705
Target:  5'- aGUGGACGgggugGCGcgccaCGGCGCCGGCg-- -3'
miRNA:   3'- aUAUCUGCa----CGCa----GUCGCGGCUGgag -5'
21351 3' -55.9 NC_004778.3 + 29070 0.68 0.764096
Target:  5'- --cGGAgGUGCGaauuguUCgGGCGCCG-CCUCg -3'
miRNA:   3'- auaUCUgCACGC------AG-UCGCGGCuGGAG- -5'
21351 3' -55.9 NC_004778.3 + 122724 0.68 0.764096
Target:  5'- -uUAGAC-UGCGUCGGCGCCugUCUg -3'
miRNA:   3'- auAUCUGcACGCAGUCGCGGcuGGAg -5'
21351 3' -55.9 NC_004778.3 + 84726 0.68 0.761189
Target:  5'- --cAGACGUcgaauuccaaagccGCGaagCAGaCGUCGACCUCa -3'
miRNA:   3'- auaUCUGCA--------------CGCa--GUC-GCGGCUGGAG- -5'
21351 3' -55.9 NC_004778.3 + 121695 0.69 0.704223
Target:  5'- cGUGGGCGUGUugcuGgccggCGGCGCUuACCUCa -3'
miRNA:   3'- aUAUCUGCACG----Ca----GUCGCGGcUGGAG- -5'
21351 3' -55.9 NC_004778.3 + 24567 0.7 0.673299
Target:  5'- -uUAGcaaaaGUGCGUCAaCGCCGACCg- -3'
miRNA:   3'- auAUCug---CACGCAGUcGCGGCUGGag -5'
21351 3' -55.9 NC_004778.3 + 122994 0.7 0.662909
Target:  5'- -uUAGACaUGCGUCAaCGCCGAUCcCg -3'
miRNA:   3'- auAUCUGcACGCAGUcGCGGCUGGaG- -5'
21351 3' -55.9 NC_004778.3 + 100015 0.7 0.662909
Target:  5'- -uUAaACaUGCGUCAGCGUCGACCc- -3'
miRNA:   3'- auAUcUGcACGCAGUCGCGGCUGGag -5'
21351 3' -55.9 NC_004778.3 + 99949 0.7 0.662909
Target:  5'- -uUAaACaUGCGUCAGCGUCGACCc- -3'
miRNA:   3'- auAUcUGcACGCAGUCGCGGCUGGag -5'
21351 3' -55.9 NC_004778.3 + 2075 0.7 0.642059
Target:  5'- -uUGGACG-GCGUCgacaaAGCGCCGGCg-- -3'
miRNA:   3'- auAUCUGCaCGCAG-----UCGCGGCUGgag -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.