Table 1 | Summary of queries

Table options

Name	Lineage	Country	Sample Date	Catchment	Source
Trinidad_and_Tobago/39213/2020	B.1.111	Trinidad_and_Tobago	2020-10-27	catchment_1	input_fasta
Trinidad_and_Tobago/37679/2020	B.1.111	Trinidad_and_Tobago	2020-08-22	catchment_1	input_fasta
Trinidad_and_Tobago/31166/2020	B.1.1.33	Trinidad_and_Tobago	2020-09-11	catchment_2	input_fasta
Trinidad_and_Tobago/30969/2020	B.1.1.33	Trinidad_and_Tobago	2020-09-11	catchment_2	input_fasta
Trinidad_and_Tobago/25889/2020	B.1.1	Trinidad_and_Tobago	2020-08-22	catchment_3	input_fasta
Trinidad_and_Tobago/25881/2020	B.1.1	Trinidad_and_Tobago	2020-08-22	catchment_3	input_fasta
Trinidad_and_Tobago/0825/2020	B.1.111	Trinidad_and_Tobago	2020-12-01	catchment_1	input_fasta
Trinidad_and_Tobago/0925/2020	B.1.111	Trinidad_and_Tobago	2020-12-01	catchment_1	input_fasta
Trinidad_and_Tobago/0895/2020	B.1.111	Trinidad_and_Tobago	2020-12-01	catchment_1	input_fasta
Trinidad_and_Tobago/0897/2020	B.1.111	Trinidad_and_Tobago	2020-12-01	catchment_1	input_fasta
Trinidad_and_Tobago/0845/2020	B.1.111	Trinidad_and_Tobago	2020-12-01	catchment_1	input_fasta
Trinidad_and_Tobago/0840/2020	B.1.111	Trinidad_and_Tobago	2020-12-01	catchment_1	input_fasta
Trinidad_and_Tobago/0876/2020	B.1.111	Trinidad_and_Tobago	2020-12-01	catchment_1	input_fasta
Trinidad_and_Tobago/1116/2020	B.1.111	Trinidad_and_Tobago	2020-12-01	catchment_1	input_fasta
Trinidad_and_Tobago/TT6949/2020	B.1.111	Trinidad_and_Tobago	2020-09-09	catchment_1	input_fasta
Trinidad_and_Tobago/TT1327/2020	B.1.111	Trinidad_and_Tobago	2020-08-28	catchment_1	input_fasta
Trinidad_and_Tobago/TT2238/2020	B.1.111	Trinidad_and_Tobago	2020-08-26	catchment_1	input_fasta
Trinidad_and_Tobago/TT7867/2020	B.1.111	Trinidad_and_Tobago	2020-08-14	catchment_1	input_fasta
Trinidad_and_Tobago/TT4707/2020	B.1.111	Trinidad_and_Tobago	2020-09-02	catchment_1	input_fasta
Trinidad_and_Tobago/TT9467/2020	B.1.111	Trinidad_and_Tobago	2020-08-19	catchment_1	input_fasta
Trinidad_and_Tobago/TT3347/2020	B.1.111	Trinidad_and_Tobago	2020-08-29	catchment_1	input_fasta
Trinidad_and_Tobago/TT7923/2020	B.1.111	Trinidad_and_Tobago	2020-09-14	catchment_1	input_fasta
Trinidad_and_Tobago/TT46686/2020	B.1.111	Trinidad_and_Tobago	2020-12-11	catchment_1	input_fasta
Trinidad_and_Tobago/TT47007/2020	B.1.111	Trinidad_and_Tobago	2020-12-17	catchment_1	input_fasta
Trinidad_and_Tobago/TT44048/2020	B.1.111	Trinidad_and_Tobago	2020-11-18	catchment_1	input_fasta
Trinidad_and_Tobago/TT44092/2020	B.1.111	Trinidad_and_Tobago	2020-11-26	catchment_1	input_fasta
Trinidad_and_Tobago/TT2158/2020	B.1.111	Trinidad_and_Tobago	2020-08-26	catchment_1	input_fasta
Trinidad_and_Tobago/TT6851/2020	B.1.111	Trinidad_and_Tobago	2020-09-09	catchment_1	input_fasta

Table 2 | Queries provided in fasta file

Passed QC Failed QC

Catchment 1

Table 3 | Summary of Catchment 1

Information
Total	47
Query Count	24
Earliest Date	2020-02-20
Latest Date	2020-08-07
Country	Colombia 34% USA 25% UK 25% Australia 4% Turkey 2% Saudi_Arabia 2% Vietnam 2% Belgium 2% Canada 2% Other 2%
Lineage	B.1 53% B.1.111 40% B.1.36 6% Other 1%

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Figure 1 | Catchment 1 phylogeny

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Figure 2 | snipit plot for queries in Catchment 1

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Figure 3 | Timeline plot for queries in Catchment 1

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Catchment 2

Table 4 | Summary of Catchment 2

Information
Total	214
Query Count	2
Earliest Date	2020-03-12
Latest Date	2020-08-18
Country	Brazil 83% USA 6% Chile 4% UK 1% Other 6%
Lineage	B.1.1.33 95% B.1.1.314 2% Other 3%

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Figure 4 | Catchment 2 phylogeny

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Figure 5 | snipit plot for queries in Catchment 2

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Figure 6 | Timeline plot for queries in Catchment 2

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Catchment 3

Table 5 | Summary of Catchment 3

Information
Total	3267
Query Count	2
Earliest Date	2020-02-23
Latest Date	2021-04-14
Country	UK 91% USA 1% Portugal 1% Other 7%
Lineage	B.1.1.119 77% B.1.1.29 8% B.1.1.83 4% B.1.1.59 1% B.1.1.237 1% Other 9%

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Figure 7 | Catchment 3 phylogeny

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Figure 8 | snipit plot for queries in Catchment 3

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Figure 9 | Timeline plot for queries in Catchment 3

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