TB-Profiler result

Run: SRR2101599
Summary

Run ID: SRR2101599

Sample name:

Date: 03-04-2023 23:48:39

Number of reads: 617709

Percentage reads mapped: 99.06

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 6540 p.Asp434Gly missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
fgd1 491014 p.Thr78Pro missense_variant 0.29
mshA 576373 c.1026G>A synonymous_variant 0.18
rpoC 767156 p.Gly1263Arg missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776792 c.1689T>C synonymous_variant 0.14
mmpL5 776889 p.Ser531Tyr missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.92
rrl 1475210 n.1553T>C non_coding_transcript_exon_variant 0.11
rpsA 1834520 p.Ala327Thr missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2168816 c.1797C>A synonymous_variant 0.15
PPE35 2169415 p.Gly400Cys missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223346 c.-182C>T upstream_gene_variant 0.11
pncA 2289934 c.-693C>A upstream_gene_variant 0.12
ahpC 2726258 c.66C>T synonymous_variant 0.12
folC 2746588 c.1011C>T synonymous_variant 0.12
thyX 3067285 p.Ala221Ser missense_variant 0.1
fprA 3474269 p.Val88Asp missense_variant 0.11
Rv3236c 3612549 p.Ala190Ser missense_variant 0.17
Rv3236c 3613094 p.Leu8Ser missense_variant 0.17
fbiB 3642231 c.697C>T synonymous_variant 0.11
clpC1 4039729 p.Asp326Asn missense_variant 1.0
panD 4044335 c.-54C>A upstream_gene_variant 0.21
embC 4240517 p.Asp219Asn missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243883 c.651C>T synonymous_variant 0.94
embA 4245780 p.Ala850Ser missense_variant 0.12
aftB 4267473 p.Gly455Val missense_variant 0.15
aftB 4269405 c.-569G>A upstream_gene_variant 0.2
ethA 4326276 p.Glu400Gln missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0