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However, like progressive methods, this technique can be influenced by the order in which the sequences in the query set are integrated into the alignment, especially when the sequences are distantly related.
Although today's sequencing machines produce quality values that represent the confidence of the individual bases in each read, these values vary greatly and require a fine-tuning step to be integrated into the alignment process.
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Sequences retrieved from Blast searches were automatically integrated into the corresponding alignments and aligned using CLUSTALW, implemented in our in-house automated Blast and alignment pipeline.
Several existing alignment algorithms are integrated into the application through plugins, allowing their usage without the need of advanced technical know-how.
ClustalW : ClustalW, one of the most commonly used tools for multiple sequence alignment, is also integrated into the database to help users find the conserved motifs in a group of neuropeptide sequences.
The described alignment approach has been integrated into the TRACKER software system.
In addition, user-friendly web tools like browsing, sequence alignment and mapping are also integrated into the NeuroPep database.
Sequence alignments were extracted from the assembly ace file with a Perl script integrated into the PhygOmicss pipeline.
Whole frame alignment was carried out using the software developed by Li et al. (2013), which is integrated into the Appion pipeline (Lander et al., 2009), to account for stage drift and beam-induced motion.
Avellino was integrated into the legitimate economy.
Alignment methods of nematic liquid crystals (LCs) by surface photoreactions on substrate surfaces were initially proposed around 1990, and the photoalignment technology of nematic LCs has recently been integrated into the LC device fabrication industry due to its profitable features.
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