TB-Profiler result

Run: SRR14782499
Summary

Run ID: SRR14782499

Sample name:

Date: 03-04-2023 11:28:12

Number of reads: 3127392

Percentage reads mapped: 99.61

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7522 p.Ala74Val missense_variant 1.0
gyrA 9647 c.2346C>G synonymous_variant 0.16
mshA 576113 p.Arg256Gly missense_variant 0.26
mshA 576442 p.Cys365Trp missense_variant 0.17
mshA 576489 p.Val381Gly missense_variant 0.23
mshA 576616 c.1269G>C synonymous_variant 0.35
rpoC 764367 p.Gly333Ala missense_variant 0.2
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777883 p.Gly200Arg missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406338 p.Val335Leu missense_variant 0.98
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
fabG1 1673553 p.Asp38Glu missense_variant 0.28
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918066 p.Ala43Pro missense_variant 0.2
PPE35 2168149 p.Pro822Ser missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2519071 p.Asp319Glu missense_variant 0.2
pepQ 2860159 p.Ala87Gly missense_variant 0.17
Rv2752c 3065587 p.Asp202Gly missense_variant 0.97
thyX 3067903 p.Thr15Ser missense_variant 1.0
ald 3087818 p.Cys333Trp missense_variant 0.1
fbiD 3339734 p.Ala206Gly missense_variant 0.5
fbiD 3339749 p.Val211Gly missense_variant 0.23
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
whiB7 3568428 c.252A>G synonymous_variant 0.31
whiB7 3568431 c.249C>G synonymous_variant 0.18
rpoA 3878577 c.-70C>G upstream_gene_variant 0.33
rpoA 3878581 c.-74C>A upstream_gene_variant 0.75
rpoA 3878641 c.-134C>G upstream_gene_variant 0.5
rpoA 3878648 c.-141C>G upstream_gene_variant 0.53
embC 4240409 p.Pro183Ala missense_variant 0.27
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246527 p.Ala5Gly missense_variant 0.37
embB 4246529 p.Ser6Gly missense_variant 0.27
embB 4247016 p.Ser168Trp missense_variant 0.21
embB 4248328 c.1815G>C synonymous_variant 0.24
aftB 4268519 c.318C>T synonymous_variant 0.99
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0