TB-Profiler result

Run: ERR3077951
Summary

Run ID: ERR3077951

Sample name:

Date: 01-04-2023 00:12:27

Number of reads: 1099857

Percentage reads mapped: 99.74

Strain: lineage4.3.4.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 0.99
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 1.0
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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 6140 p.Val301Leu missense_variant 1.0
gyrB 6590 c.1351_1352insT frameshift_variant 0.11
gyrB 6593 p.Lys452Gln missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8226 p.Arg309Trp missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.19
ccsA 620748 c.858T>G synonymous_variant 0.26
rpoB 759620 c.-187A>C upstream_gene_variant 0.21
rpoB 761229 p.Gly475Ser missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726301 p.Thr37Ala missense_variant 0.11
ahpC 2726338 p.Val49Gly missense_variant 0.2
pepQ 2860017 c.402T>C synonymous_variant 0.87
pepQ 2860149 c.270C>A synonymous_variant 0.12
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086996 c.177C>T synonymous_variant 0.11
fbiD 3339653 p.Thr179Ile missense_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474663 c.657C>T synonymous_variant 0.13
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4240570 c.712dupG frameshift_variant 0.1
embC 4240648 c.786C>T synonymous_variant 0.24
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246647 c.140_142dupTGC disruptive_inframe_insertion 0.11
embB 4247287 c.774T>G synonymous_variant 1.0
aftB 4267431 p.Ser469Trp missense_variant 0.11
ethA 4328212 c.-740delC upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0