 _____ _____   _ _     _   
| ____|__  /__| (_)___| |_ 
|  _|   / // _` | / __| __|
| |___ / /| (_| | \__ \ |_ 
|_____/____\__,_|_|___/\__|


Starting EZdist run
FASTA       : /home/labadmin/Ezmito/uploaded_jobs/claudio_20260626_192802_863739_e9c3758b/Ezpcoa.fasta
Model       : k2p
Gap treat   : pairwise
Colour      : RdYlBu
Show values : True
Outdir      : /home/labadmin/Ezmito/complete_jobs/claudio_20260626_192802_863739_e9c3758b

Sequences loaded: 41
Alignment check passed: all sequences are 1225 bp
Pairwise deletion: gaps/ambiguities skipped per pair
Computing pairwise distances ...
Distance matrix computed.
Distance table saved: /home/labadmin/Ezmito/complete_jobs/claudio_20260626_192802_863739_e9c3758b/K2P_distance_matrix.tsv
Unique haplotypes: 39 (from 41 sequences)
Collapsed FASTA saved: collapsed_haplotypes.fasta
Haplotype assignments saved: haplotype_assignments.tsv
Generating heatmaps ...
Heatmap saved: K2P_heatmap_collapsed.pdf
Heatmap saved: K2P_heatmap_all_sequences.pdf

Total runtime: 5.52 seconds

Citations
---------
If you used this tool, please cite:

- Cucini, C., Leo, C., Iannotti, N., Boschi, S., Brunetti, C., Pons, J., Fanciulli, P.P., Frati, F., Carapelli, A., & Nardi, F. (2021). EZmito: a simple and fast tool for multiple mitogenome analyses. Mitochondrial DNA Part B, 6(3), 1101-1109. https://doi.org/10.1080/23802359.2021.1899865


- Harris, C. R., Millman, K. J., Van Der Walt, S. J., Gommers, R., Virtanen, P., Cournapeau, D., et al. (2020). Array programming with NumPy. Nature, 585(7825), 357-362.
- McKinney, W. (2010). Data structures for statistical computing in Python. 445(1), 51-56. https://doi.org/10.25080/Majora-92bf1922-00a
- Hunter, J. D. (2007). Matplotlib: A 2D graphics environment. Computing in science & engineering, 9(3), 90-95. https://doi.org/10.1109/MCSE.2007.55
- Virtanen, P., Gommers, R., Oliphant, T. E., Haberland, M., Reddy, T., Cournapeau, D., ... & Van Mulbregt, P. (2020). SciPy 1.0: fundamental algorithms for scientific computing in Python. Nature methods, 17(3), 261-272. https://doi.org/10.1038/s41592-019-0686-2
