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We look for support of assembled sequence at all insert sizes, so that incorrect assembly can result only if the repetitive structure spans all libraries.
It is likely that the unique genomic regions containing the missing markers is flanking or between the repetitive elements that caused the incorrect assembly, and by being buried in the deep stack of incorrectly assembled BACs, they were not represented in the sequencing pool.
Due to incorrect assembly process the part has been damaged.
These results indicate that the transient formation of misfolded compact states may involve the incorrect assembly of specific non-native elements within an overall native-like topology.
The use of control devices allows solving problems of contractors non-compliance with the requirements of the project and the consequences of incorrect assembly, which in turn may lead not only to economic losses but also to the damage caused to the health and lives of people.
Under these circumstances, additional sequencing is unlikely to rectify the incorrect assembly, since chimeric sequences are far more abundant than correct sequences.
Similar(19)
It is possible that some of the assembled Fosmid scaffold sequences are themselves the result of incorrect assemblies of the raw Fosmid read data.
Indeed, by closer inspection of the mis-assembled regions, different types of repetitive elements were identified which caused all incorrect assemblies (Fig. 5, other data not shown).
Many assemblies are also incomplete (contain gaps) and may contain incorrect assemblies.
In addition, interspersed repeat sequences [ 36] can lead to the formation of incorrect assemblies of genomic sequences and transcripts (contigs).
These datasets pose significant challenges to assembly algorithms and can, depending on the repeat complexity of the genome, lead to fragmented or incorrect assemblies.
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Justyna Jupowicz-Kozak
CEO of Professional Science Editing for Scientists @ prosciediting.com