Cluster relationships are evident in Gepard dotplot alignments using whole genome sequences or single genes. Gepard dotplots were constructed to demonstrate clustering of 79 phages using nucleotide sequences of entire phage genomes (A), TMP genes (B), MCP genes (C), or amino acid sequences of TMP’s (D) or MCP’s (E). Cluster assignment is available at http://phagesdb.org and is indicated on the axes. The mycobacteriophages included three representative phages per cluster when possible and were plotted in the following order A1, A2, A3, A4, A5, A6, B1, B2, B3, B4, B5, D, E, F1, F2, G, H1, H2, I1, I2, J, K1, K2, K3, K4, K5, L1, L2, M, N, and O. The plots contain only two H1, K3, K5 and M cluster phage, and only one of B5, H2, I2, K2, and K4. Fasta files of whole genome sequences were downloaded from GenBank or the http://phagesdb.org website and TMP or MCP sequences were identified by auto-annotation in DNA Master (http://cobamide2.bio.pitt.edu) and Blast searches when necessary. Gepard  was used to generate dotplots of TMP nucleotide and amino acid sequences.