Table 2.

Comparison of sequence variations and de novo TE copies detected in XL280α TA lines passaged a total of ~6,400 generations at 30° or ~8,000 generations at 37 °C^*,†,‡

30° lines	SNPs	INDELs	T1	Tcn12	Cnl1	SNPs/INDELs	Total TEs
30-01	5	0	1	0	0	5	1
30-02	6	2	4	0	3	8	7
30-03	2	1	1	0	2	3	3
30-16	7	3	2	0	0	10	2
30-17	6	1	1	0	2	7	3
30-18	6	3	0	0	16	9	16
30-19	8	2	0	0	6	10	6
30-20	12	2	1	0	0	14	1
Total	52	14	10	0	29	66	39
Per generation	0.0081	0.0022	0.0016	0.000	0.0045	0.010	0.0061
37° lines	SNPs	INDELs	T1	Tcn12	Cnl1	SNPs/INDELs	Total TEs
37-01	8	2	4	3	28	10	35
37-02	5	3	9	1	40	8	50
37-03	7	0	6	0	13	7	19
37-16	17	1	1	0	14	18	15
37-17	4	1	0	2	16	5	18
37-18	4	1	2	2	9	5	13
37-19	7	4	4	2	20	11	26
37-20	5	1	1	2	15	6	18
37-21	2	1	3	1	30	3	34
37-22	3	0	4	0	12	3	16
Total	62	14	34	13	197	76	244
Per generation	0.0078	0.0018	0.0043	0.0016	0.025	0.0095	0.031

^*SNPs, INDELs (1 to 13 bp INDELs) and de novo T1 and Tcn12 copies were detected by Illumina whole-genome sequencing analyses.

^†Cnl1 values represent estimated new full-length copies determined by qPCR.

^‡Bolded values indicate TE copies detected or confirmed by Nanopore sequencing.