1200 artificial genome sequences containing a single-or-multistep NAHR event each.

This is a companion dataset to Höps et al. 2024: Impact and characterization of serial structural variations across humans and great apes

600 'ancestor'; i.e. source sequences with two pairs of SDs were mutated first. The SD sequences of the two pairs are not overlapping, however the space between SD pairs IS. There are two possible configurations for this: 1-2-2-1 or 1-2-1-2, with 1 and 2 denoting the identity of repeat pair 1 and 2. This configuration as well as the relative orientation of the two SDs (same direction / inverse direction) were randomly chosen.

We used four target SD lenghts [100bp, 500bp, 1000bp, 10000bp] and three SD similarity scores [90%, 95%, 99%], totalling 12 combinations. Here, we created 50 artifical sequences for each of these configurations, totalling 600 sequences. 

From the 600 ancestor sequences, we then simulated several, again randomly chosen NAHR chains up to depth-3 using the mutate_sequences.py script in the attached github. Finally, we chose two 'representative' mutated seuqnces for each ancestor, totalling 1200 sequences published here. 

This upload contains two (zipped) folders; ancestors and mutated_seqs. The ancestors are enumerated 1-600, and mutated seqs likewise have their corresponding ancestor in the beginning of their filename. 

The data was created using the generate_mutate script in https://github.com/WHops/nahrwhals_simulate_events release v0.2. 

contact: wolfram.hoeps@gmail.com