TB-Profiler result

Run: SRR6785216
Summary

Run ID: SRR6785216

Sample name:

Date: 04-04-2023 15:37:11

Number of reads: 1945662

Percentage reads mapped: 99.75

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 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
gyrB 6076 c.837C>T synonymous_variant 0.15
gyrA 6793 c.-509T>C upstream_gene_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.26
rpoB 759640 c.-167G>T upstream_gene_variant 0.12
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
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474880 n.1223T>C non_coding_transcript_exon_variant 0.17
fabG1 1673380 c.-60C>G upstream_gene_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2168076 p.Thr846Met missense_variant 1.0
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169125 c.1488T>C synonymous_variant 0.15
PPE35 2169198 p.Val472Ala missense_variant 0.12
PPE35 2169269 c.1344A>G synonymous_variant 0.11
PPE35 2169272 c.1341C>G synonymous_variant 0.12
PPE35 2169278 c.1335T>C synonymous_variant 0.14
PPE35 2169281 c.1332T>G synonymous_variant 0.14
PPE35 2169287 c.1326T>C synonymous_variant 0.18
PPE35 2169293 c.1320T>C synonymous_variant 0.2
PPE35 2169308 c.1305C>T synonymous_variant 0.15
PPE35 2169902 p.Leu237Phe missense_variant 0.19
PPE35 2169910 p.Asn235Tyr missense_variant 0.17
PPE35 2170048 p.Leu189Val missense_variant 0.14
PPE35 2170053 p.Thr187Ser missense_variant 0.13
whiB7 3568431 c.249C>G synonymous_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245751 c.2522delG frameshift_variant 0.13
embB 4246544 p.Thr11Pro missense_variant 0.14
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.21
embB 4246556 p.Ala15Pro missense_variant 0.21
embB 4246563 p.Leu17Trp missense_variant 0.2
embB 4246567 c.54G>T synonymous_variant 0.2
embB 4246584 p.Arg24Pro missense_variant 0.3
embB 4246669 c.156C>A synonymous_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv1979c 2222416 c.-597_748del frameshift_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0