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Short reads are also aligned following less stringent criteria allowing reads to map multiple positions, which helped in identification of repeat genes.
The remaining unidentified contigs were submitted to TEclass (Abrusán et al. 2009), a tool that determines the likely mode of transposition and thus aids in identification of repeat type.
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In particular, identification of repeated sequences in mycobacterial genome and their analysis at molecular level allowed to develop the intraspecies discrimination methods for mycobacteria [ 1].
In addition, as mentioned above, identification of repeat elements is essential for correct gene set generation, since unidentified TEs can affect the quality of gene annotation and annotation-dependent analyses such as microarray-based gene expression studies [ 9].
For this purpose, and in order to generate accurate gene predictions and annotation, a detail identification of repeat elements in the genome is fundamental.
Genome and transcriptome analyses in A. indica led to the identification of repeat elements, nucleotide composition and expression profiles of genes in various organs.
RepeatScout [ 75] was used for de-novo identification of repeat sequences in both CDC and EC sequences.
Frontotemporal dementia (FTD) is a common cause of early-onset dementia with a significant genetic component, as underlined by the recent identification of repeat expansions in the gene C9ORF72 as a major cause of FTD and motor neuron disease.
Identification of repeat expansions in the general population during mutation screening of neurologically normal controls [ 1, 4] suggests that C9ORF72 expansions may actually be as common in "controls" as in specific clinical phenotypes, such as corticobasal syndrome (CBS) and sporadic Creutzfeldt Jakob disease [ 1, 5].
We demonstrated overall improvement in identification of patient safety issues with repeat high-fidelity clinical case-based simulation, however we note that identification rates improve primarily in specific areas such as the evaluation of longitudinal trends and medication errors, but remain poor in other areas.
The identification of repeat elements was carried out using repeat masker (http://www.repeatmasker.org/).org/
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