TB-Profiler result

Run: SRR21677877
Summary

Run ID: SRR21677877

Sample name:

Date: 04-04-2023 02:49:11

Number of reads: 89223

Percentage reads mapped: 96.15

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 None 1.0
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
gyrA 8103 p.Ser268Thr missense_variant 0.29
gyrA 8984 p.Cys561* stop_gained 0.22
fgd1 491196 c.414A>T synonymous_variant 1.0
mshA 576255 p.Gly303Val missense_variant 0.5
mshA 576351 p.Asp335Ala missense_variant 0.5
rpoB 759762 c.-45T>C upstream_gene_variant 0.5
rpoB 761018 p.Glu404Asp missense_variant 0.67
rpoB 761897 c.2091C>A synonymous_variant 0.5
rpoC 763655 p.Glu96Gln missense_variant 1.0
rpoC 765256 c.1887G>T synonymous_variant 0.5
rpoC 766481 p.Arg1038Trp missense_variant 0.5
mmpL5 775825 c.2656C>T synonymous_variant 0.67
mmpL5 776834 c.1647C>G synonymous_variant 0.67
mmpL5 778615 c.-135G>T upstream_gene_variant 0.25
mmpR5 779180 p.Ser64Ile missense_variant 0.5
fbiC 1303823 p.Lys298Arg missense_variant 0.25
Rv1258c 1406481 p.Arg287Leu missense_variant 0.2
atpE 1460926 c.-119C>A upstream_gene_variant 0.33
rrs 1472056 n.211G>A non_coding_transcript_exon_variant 0.29
rrl 1473671 n.14A>C non_coding_transcript_exon_variant 0.4
rrl 1473725 n.68G>A non_coding_transcript_exon_variant 0.67
fabG1 1673569 p.Val44Ile missense_variant 0.67
rpsA 1833566 p.Pro9Ser missense_variant 0.25
rpsA 1834496 p.Gly319Arg missense_variant 0.4
tlyA 1917926 c.-14G>T upstream_gene_variant 0.33
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918230 c.291C>A synonymous_variant 0.33
ndh 2103024 p.Pro7Thr missense_variant 0.29
PPE35 2168297 c.2316G>T synonymous_variant 0.18
PPE35 2168378 c.2235C>T synonymous_variant 0.25
PPE35 2168746 p.Gly623Arg missense_variant 0.67
PPE35 2169002 c.1610delT frameshift_variant 0.5
PPE35 2169050 c.1563C>T synonymous_variant 1.0
PPE35 2169768 p.Ala282Gly missense_variant 0.29
Rv1979c 2223364 c.-200G>A upstream_gene_variant 0.5
ahpC 2726749 p.Asp186Gly missense_variant 1.0
folC 2746422 p.Ala393Ser missense_variant 0.67
Rv2752c 3065694 c.498G>A synonymous_variant 0.33
ald 3086638 c.-182G>A upstream_gene_variant 0.25
ald 3087426 p.Lys203Glu missense_variant 0.29
ald 3087470 c.651T>A synonymous_variant 0.25
fbiD 3339137 p.Asp7Gly missense_variant 0.4
fprA 3473979 c.-28C>A upstream_gene_variant 0.2
fbiB 3640719 c.-816C>T upstream_gene_variant 0.33
alr 3840688 c.731_732dupCC frameshift_variant 0.5
alr 3841240 p.Leu61Met missense_variant 0.33
ddn 3987170 c.327T>C synonymous_variant 0.5
clpC1 4038691 p.Asp672His missense_variant 0.5
embC 4240701 p.Val280Ala missense_variant 1.0
embC 4242089 p.Ala743Ser missense_variant 0.5
embA 4244475 p.Ala415Pro missense_variant 0.5
embA 4244996 c.1764C>G synonymous_variant 0.33
embB 4249300 p.Trp929* stop_gained 0.4
ethA 4326840 p.Ile212Val missense_variant 0.67
whiB6 4338275 p.Glu83Lys missense_variant 0.22
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407556 p.Ala216Glu missense_variant 0.25