Using modern techniques of sequencing by synthesis and the shotgun approach,how are sequences assembled into chromosomes?

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Sequences obtained using sequencing by synthesis and shotgun approach are short fragments. They are analyzed using bioinformatic tools that look for sequence overlaps to assemble them into longer contiguous sequences called contigs. These contigs are further assembled into chromosomes using computer programs that use genetic maps for scaffolding. Once the contigs are ordered based on their relative positions on the genetic map, the gaps between them are filled by resequencing targeted areas, and the entire sequence is polished to increase its accuracy.

Using Modern Techniques of Sequencing by Synthesis and the Shotgun