TB-Profiler result

Run: SRR6896187
Summary

Run ID: SRR6896187

Sample name:

Date: 04-04-2023 17:58:06

Number of reads: 602742

Percentage reads mapped: 99.61

Strain: lineage4.3.2.1

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
lineage4.3.2 Euro-American (LAM) LAM3 None 1.0
lineage4.3.2.1 Euro-American (LAM) LAM3 RD761 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 5520 p.Pro94Leu missense_variant 1.0
gyrA 7222 c.-80C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491670 p.Lys296Asn missense_variant 0.17
fgd1 491723 p.Gly314Val missense_variant 0.14
mshA 576118 c.771C>G synonymous_variant 0.11
rpoB 759620 c.-187A>C upstream_gene_variant 0.21
rpoC 764164 c.795C>A synonymous_variant 0.14
rpoC 764237 p.Leu290Ile missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777478 p.Leu335Ile missense_variant 0.11
mmpL5 778221 p.Ser87Phe missense_variant 0.12
mmpL5 778974 c.-494C>A upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472180 n.335A>T non_coding_transcript_exon_variant 0.12
rrs 1472222 n.377G>T non_coding_transcript_exon_variant 0.17
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrl 1473747 n.90C>A non_coding_transcript_exon_variant 0.13
rrl 1475715 n.2058G>T non_coding_transcript_exon_variant 0.2
rrl 1475970 n.2313C>A non_coding_transcript_exon_variant 0.14
rrl 1476150 n.2493G>T non_coding_transcript_exon_variant 0.12
rrl 1476232 n.2575G>T non_coding_transcript_exon_variant 0.2
fabG1 1673910 p.Lys157Asn missense_variant 0.13
rpsA 1833554 p.Thr5Pro missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102938 c.105G>T synonymous_variant 0.14
ndh 2103071 c.-29C>T upstream_gene_variant 0.15
katG 2155882 p.Thr77Lys missense_variant 0.13
PPE35 2169863 c.750C>T synonymous_variant 0.18
Rv1979c 2222805 c.360G>T synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.19
folC 2746248 p.Ala451Ser missense_variant 0.14
ribD 2987435 c.597C>A synonymous_variant 0.2
ribD 2987577 p.Asp247Tyr missense_variant 0.14
Rv2752c 3065319 c.873C>T synonymous_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.21
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475060 p.Pro352Thr missense_variant 0.13
Rv3236c 3612957 p.Ala54Ser missense_variant 0.13
fbiB 3641542 c.12delC frameshift_variant 0.11
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4039654 p.Thr351Ser missense_variant 0.11
embC 4240710 p.Trp283Leu missense_variant 0.2
embC 4241528 p.Arg556Ser missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244249 c.1017C>A synonymous_variant 0.17
embA 4245353 p.Lys707Asn missense_variant 0.11
aftB 4268008 p.Gly277* stop_gained 0.13
aftB 4268512 c.324delC frameshift_variant 0.13
aftB 4268801 c.36G>T synonymous_variant 0.12
aftB 4269501 c.-665G>T upstream_gene_variant 0.17
ethR 4327597 p.Thr17Ala missense_variant 0.17
ethR 4327682 p.Ile45Thr missense_variant 0.12
ethA 4327776 c.-303C>T upstream_gene_variant 0.18
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0