done. scoremtx = 1 Gap Penalty = -1.53, +0.00, +0.00 Making a distance matrix .. 1 / 2 done. Constructing a UPGMA tree ... 0 / 2 done. Progressive alignment ... STEP 1 / 1 f done. disttbfast (aa) Version 6.713b alg=A, model=BLOSUM62, 1.530, -0.000, -0.000 comment = FFT-NS-1 done. scoremtx = 1 Strategy: FFT-NS-1 (Very fast but very rough) Progressive method (rough guide tree was used.) If unsure which option to use, try 'mafft --auto input > output'. If the possibility of long gaps can be excluded, add '--ep 0.123'. For more information, see 'mafft --help', 'mafft --man' and the mafft page.