TB-Profiler result

Run: SRR6832128
Summary

Run ID: SRR6832128

Sample name:

Date: 04-04-2023 17:14:39

Number of reads: 596329

Percentage reads mapped: 99.78

Strain: lineage4.8

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.99
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrB 5078 c.-162_-161insG upstream_gene_variant 1.0
gyrB 5300 p.Glu21* stop_gained 0.25
gyrB 6197 p.Phe320Leu missense_variant 0.25
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 9706 p.Arg802Gln missense_variant 1.0
fgd1 491648 p.Asp289Gly missense_variant 0.1
ccsA 620587 p.Thr233Ser missense_variant 0.2
rpoC 762765 c.-605C>T upstream_gene_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777524 c.956delG frameshift_variant 1.0
mmpS5 778580 p.Gly109Asp missense_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800763 c.-46C>G upstream_gene_variant 0.14
rplC 800797 c.-12T>C upstream_gene_variant 0.14
embR 1416662 p.Arg229Leu missense_variant 0.2
embR 1417305 p.Leu15Met missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
inhA 1674586 p.Ser129Pro missense_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pepQ 2860133 p.Gly96Ser missense_variant 0.18
fbiD 3339741 c.624G>T synonymous_variant 0.22
fbiD 3339744 c.627A>C synonymous_variant 0.22
Rv3083 3448322 c.-182G>A upstream_gene_variant 1.0
fprA 3474091 p.Thr29Ser missense_variant 0.25
fprA 3474211 p.Lys69* stop_gained 0.29
fbiB 3641611 p.Gly26Val missense_variant 0.13
clpC1 4038774 p.Asp644Val missense_variant 0.22
clpC1 4039493 p.Asp404Glu missense_variant 0.29
embC 4242012 p.Leu717Pro missense_variant 0.2
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245150 p.Val640Phe missense_variant 0.29
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407718 p.Ile162Asn missense_variant 0.14
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0