Settings used

alignment         : ./Esibiricum_dataset_050716.phy
branchlengths     : linked
models            : K81+I, GTR+I, F81+I+G, GTR+G, TrN+G, F81, K81+G, F81+G, TIM, TIM+I+G, TVM+G, JC+I+G, TVMef+G, TVMef+I, TVM+I, TrNef+I, F81+I, JC, TIMef+G, HKY, K81uf+I, TVMef, K81uf+G, K81+I+G, TIMef+I, TVM, SYM+I, K81uf, JC+I, K80, K81, K80+I+G, K80+I, SYM+G, K81uf+I+G, K80+G, TrN+I, GTR+I+G, GTR, TIM+G, HKY+I+G, TIMef, TIM+I, TVMef+I+G, TVM+I+G, HKY+G, SYM+I+G, TrN, HKY+I, SYM, TIMef+I+G, JC+G, TrNef, TrNef+G, TrNef+I+G, TrN+I+G
model_selection   : bic
search            : greedy


Best partitioning scheme

Scheme Name       : step_26
Scheme lnL        : -31734.48482
Scheme BIC        : 64011.2402591
Number of params  : 58
Number of sites   : 11493
Number of subsets : 6

Subset | Best Model | Subset Partitions              | Subset Sites                   | Alignment                               
1      | GTR+I+G    | ATP6_1, CYTB_1, ND1_1, ND3_1, ND4L_1, ND4_1, ND5_1, ND6_2 | 1-318, 1462-1687, 1949-2063, 2064-2160, 2161-2619, 2620-3218, 3219-3597, 7365-7534 | ./analysis/phylofiles/1ca68b598184d761050b8e19b4dfff34.phy
2      | TrN+G      | 12S_loops, 16S_loops, ATP8_1, ATP8_2, ND2_1, ND6_1, tRNA_loops | 319-665, 1408-1461, 5005-5058, 7195-7364, 7535-7962, 8471-9186, 10013-10633 | ./analysis/phylofiles/ea6e3e22b4d79d5a4a2f5ef444cff300.phy
3      | TrNef+I    | CO1_1, CO2_1, CO3_1            | 666-1179, 1180-1407, 1688-1948 | ./analysis/phylofiles/33c104372b8f8b431e0345c7424a1086.phy
4      | HKY+I+G    | ATP6_2, CYTB_2, ND1_2, ND2_2, ND3_2, ND4L_2, ND4_2, ND5_2 | 3598-3915, 3916-4262, 5059-5284, 5546-5660, 5661-5757, 5758-6216, 6217-6815, 6816-7194 | ./analysis/phylofiles/2e42837abd144309b1b5295249db53dc.phy
5      | HKY+I      | CO1_2, CO2_2, CO3_2            | 4263-4776, 4777-5004, 5285-5545 | ./analysis/phylofiles/31187fe514fe0d28d5912c4a308e7e8a.phy
6      | TrN+G      | 12S_stems, 16S_stems, tRNA_stems | 7963-8470, 9187-10012, 10634-11493 | ./analysis/phylofiles/7bff88a52a3d497f1ea116e8a1114f4e.phy


Scheme Description in PartitionFinder format
Scheme_step_26 = (ATP6_1, CYTB_1, ND1_1, ND3_1, ND4L_1, ND4_1, ND5_1, ND6_2) (12S_loops, 16S_loops, ATP8_1, ATP8_2, ND2_1, ND6_1, tRNA_loops) (CO1_1, CO2_1, CO3_1) (ATP6_2, CYTB_2, ND1_2, ND2_2, ND3_2, ND4L_2, ND4_2, ND5_2) (CO1_2, CO2_2, CO3_2) (12S_stems, 16S_stems, tRNA_stems);

RaxML-style partition definitions
DNA, p1 = 1-318, 1462-1687, 1949-2063, 2064-2160, 2161-2619, 2620-3218, 3219-3597, 7365-7534
DNA, p2 = 319-665, 1408-1461, 5005-5058, 7195-7364, 7535-7962, 8471-9186, 10013-10633
DNA, p3 = 666-1179, 1180-1407, 1688-1948
DNA, p4 = 3598-3915, 3916-4262, 5059-5284, 5546-5660, 5661-5757, 5758-6216, 6217-6815, 6816-7194
DNA, p5 = 4263-4776, 4777-5004, 5285-5545
DNA, p6 = 7963-8470, 9187-10012, 10634-11493