miRNA display CGI


Results 1 - 20 of 33 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
11919 3' -55.2 NC_003278.1 + 2028 0.68 0.49829
Target:  5'- uCGGUGCCG-CGGCGcauguacuugGCCAGcggcgCC-UGCa -3'
miRNA:   3'- -GCUACGGUaGCCGC----------UGGUCa----GGuACG- -5'
11919 3' -55.2 NC_003278.1 + 3299 0.76 0.149764
Target:  5'- uGAUGCgAUCGGCGGCCGG-CU-UGCc -3'
miRNA:   3'- gCUACGgUAGCCGCUGGUCaGGuACG- -5'
11919 3' -55.2 NC_003278.1 + 5210 0.71 0.311049
Target:  5'- ---cGCCAcCGGUGACCGGgggCCGcUGCu -3'
miRNA:   3'- gcuaCGGUaGCCGCUGGUCa--GGU-ACG- -5'
11919 3' -55.2 NC_003278.1 + 7124 0.66 0.620079
Target:  5'- cCGG-GCCGUUGGCGAUgAaUCCGcucaUGCu -3'
miRNA:   3'- -GCUaCGGUAGCCGCUGgUcAGGU----ACG- -5'
11919 3' -55.2 NC_003278.1 + 7880 0.67 0.508996
Target:  5'- uGggGCCGU-GGuCGGCCAGgCCGUGg -3'
miRNA:   3'- gCuaCGGUAgCC-GCUGGUCaGGUACg -5'
11919 3' -55.2 NC_003278.1 + 8777 1.13 0.000333
Target:  5'- gCGAUGCCAUCGGCGACCAGUCCAUGCg -3'
miRNA:   3'- -GCUACGGUAGCCGCUGGUCAGGUACG- -5'
11919 3' -55.2 NC_003278.1 + 8830 0.68 0.477191
Target:  5'- uCGAccUGCCGcUGGCGACgA-UCUAUGCa -3'
miRNA:   3'- -GCU--ACGGUaGCCGCUGgUcAGGUACG- -5'
11919 3' -55.2 NC_003278.1 + 11929 0.66 0.620079
Target:  5'- nCGAUGCCcaaGGCaGCCAG-CCGgucaGCa -3'
miRNA:   3'- -GCUACGGuagCCGcUGGUCaGGUa---CG- -5'
11919 3' -55.2 NC_003278.1 + 11950 0.66 0.574989
Target:  5'- ---cGCgGUCGGCG-CCGGcCCGcgGCg -3'
miRNA:   3'- gcuaCGgUAGCCGCuGGUCaGGUa-CG- -5'
11919 3' -55.2 NC_003278.1 + 12298 0.71 0.31903
Target:  5'- uGAUGCCcUUGGCGAUCAcGUCgAcGCu -3'
miRNA:   3'- gCUACGGuAGCCGCUGGU-CAGgUaCG- -5'
11919 3' -55.2 NC_003278.1 + 13143 0.68 0.477191
Target:  5'- gCGAUGCC-UCGGCcgUCAGcCCAUcGCc -3'
miRNA:   3'- -GCUACGGuAGCCGcuGGUCaGGUA-CG- -5'
11919 3' -55.2 NC_003278.1 + 14419 0.74 0.209244
Target:  5'- cCGAUgGCCAUCGGCaGuACCAG-CUcgGCg -3'
miRNA:   3'- -GCUA-CGGUAGCCG-C-UGGUCaGGuaCG- -5'
11919 3' -55.2 NC_003278.1 + 14602 0.73 0.239547
Target:  5'- aCGAUGCCGUCGucgaUGAUCAGuucgacgugcUCCAUGCc -3'
miRNA:   3'- -GCUACGGUAGCc---GCUGGUC----------AGGUACG- -5'
11919 3' -55.2 NC_003278.1 + 14784 0.71 0.31903
Target:  5'- aCGAUGCCAUUGGCGuugacggugaccGCaCGGUagGUGCc -3'
miRNA:   3'- -GCUACGGUAGCCGC------------UG-GUCAggUACG- -5'
11919 3' -55.2 NC_003278.1 + 16886 0.72 0.265659
Target:  5'- aGAcGCCAUCuGCGaagagggcuucgaGCCAGUCCgGUGCg -3'
miRNA:   3'- gCUaCGGUAGcCGC-------------UGGUCAGG-UACG- -5'
11919 3' -55.2 NC_003278.1 + 17242 0.69 0.4265
Target:  5'- gCGcgGUCAUCGGCGGCguCAGcgCCGaugGCa -3'
miRNA:   3'- -GCuaCGGUAGCCGCUG--GUCa-GGUa--CG- -5'
11919 3' -55.2 NC_003278.1 + 18373 0.67 0.541658
Target:  5'- uCGAaGCCuagGUCGGCcuuGACCGggccGUUCAUGCc -3'
miRNA:   3'- -GCUaCGG---UAGCCG---CUGGU----CAGGUACG- -5'
11919 3' -55.2 NC_003278.1 + 18812 0.66 0.59071
Target:  5'- ---aGCCGaucaagcgCGGCGcCCAGUCCAucgaaucgcucacccUGCg -3'
miRNA:   3'- gcuaCGGUa-------GCCGCuGGUCAGGU---------------ACG- -5'
11919 3' -55.2 NC_003278.1 + 19449 0.68 0.49829
Target:  5'- -cGUGCCuGUUGcGCGGCCAGcgCgGUGCu -3'
miRNA:   3'- gcUACGG-UAGC-CGCUGGUCa-GgUACG- -5'
11919 3' -55.2 NC_003278.1 + 20527 0.77 0.129851
Target:  5'- ---cGCCGUCgagGGCGGCCAGUuccagaCCAUGCg -3'
miRNA:   3'- gcuaCGGUAG---CCGCUGGUCA------GGUACG- -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.