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TGS-TB

TGS-TB v2 demo

Strain Raw reads After
quality trimming
Removal of
excess reads
(target: 100×)
Mapped reads H37Rv reference genome
(NC_000962.3)
4,411,532 bp
Covered region Avg. depth
Strain_A 1,547,940 1,343,742 1,343,742 1,337,869 4,375,571 64.3×
86.81% 86.81% 86.43% 99.18%
Strain_B 1,092,148 1,017,728 1,017,728 1,012,408 4,386,485 55.1×
93.19% 93.19% 92.70% 99.43%
Strain_C 3,966,344 3,634,288 2,083,926 2,068,591 4,370,066 109.4×
91.63% 52.54% 52.15% 99.06%
Strain_D 3,473,398 3,343,440 2,136,823 2,125,800 4,371,932 109.3×
96.26% 61.52% 61.20% 99.10%

Reads trimming report

SNV detection report

Number of SNVs
SNV sites Original Effective
Original dataset 21,805 21,240 97.41%
Additional - 599
Total 21,839

Completed in silico genotyping


SNV data without reference data in fasta format. (Minumum spanning tree can be made by using PHYLOViZ.) (6.2 KBytes)
SNV data for only queries in NEXUS format. (Minumum spanning tree can be made by using PopART.) (6.3 KBytes)
SNV data with reference data in NEXUS format. (Minumum spanning tree can be made by using PopART.) (1.7 MBytes)

Phylocore genome tree