TB-Profiler result

Run: SRR6511629
Summary

Run ID: SRR6511629

Sample name:

Date: 04-04-2023 15:15:41

Number of reads: 235367

Percentage reads mapped: 99.55

Strain:

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
lineage4.3.4.1 Euro-American (LAM) LAM1;LAM2 RD174 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8917 p.Arg539His missense_variant 0.5
fgd1 491003 p.Val74Ala missense_variant 0.17
ccsA 620362 p.Ala158Thr missense_variant 0.33
rpoB 761021 c.1215G>A synonymous_variant 0.33
rpoB 761129 c.1323G>T synonymous_variant 0.18
rpoC 763832 p.Met155Val missense_variant 0.17
rpoC 763865 p.Arg166Cys missense_variant 0.5
rpoC 764995 c.1626C>G synonymous_variant 1.0
rpoC 765134 p.Thr589Ala missense_variant 0.2
rpoC 765144 c.1779delC frameshift_variant 0.25
rpoC 765590 p.Arg741Ser missense_variant 1.0
rpoC 766657 c.3288A>G synonymous_variant 0.25
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776514 p.His656Arg missense_variant 0.33
mmpL5 777712 p.Gly257Arg missense_variant 0.2
mmpL5 778168 p.Ala105Thr missense_variant 0.5
mmpR5 778324 c.-666G>A upstream_gene_variant 0.14
mmpL5 778429 p.His18Tyr missense_variant 0.18
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801045 c.237A>G synonymous_variant 0.5
fbiC 1303123 p.Val65Met missense_variant 1.0
fbiC 1304095 p.Val389Met missense_variant 0.33
fbiC 1304285 p.Ala452Glu missense_variant 0.22
Rv1258c 1406665 p.Arg226Cys missense_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474935 n.1278A>G non_coding_transcript_exon_variant 0.5
fabG1 1673561 p.Lys41Met missense_variant 0.33
inhA 1673958 c.-244G>A upstream_gene_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918356 c.417C>G synonymous_variant 0.33
tlyA 1918684 c.745C>A synonymous_variant 0.5
katG 2155866 c.246A>G synonymous_variant 0.25
Rv1979c 2222785 p.Trp127* stop_gained 1.0
Rv1979c 2223123 c.42G>A synonymous_variant 1.0
Rv1979c 2223167 c.-3G>A upstream_gene_variant 0.25
pncA 2289736 c.-495T>C upstream_gene_variant 0.5
pncA 2290157 c.-916C>T upstream_gene_variant 0.5
eis 2714723 p.Cys204Ser missense_variant 0.5
ahpC 2726004 c.-189G>A upstream_gene_variant 0.33
ahpC 2726392 p.Ala67Val missense_variant 0.5
folC 2747086 c.513A>G synonymous_variant 0.33
pepQ 2859414 c.1005T>C synonymous_variant 0.33
thyX 3067214 c.732C>T synonymous_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074267 p.Ile69Val missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339560 p.Thr148Ile missense_variant 0.5
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475339 p.Ala445Thr missense_variant 1.0
whiB7 3568819 c.-140C>T upstream_gene_variant 0.14
fbiB 3640707 c.-828G>A upstream_gene_variant 0.33
fbiB 3642111 p.Ala193Thr missense_variant 0.4
ddn 3987224 c.381C>T synonymous_variant 0.25
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040717 c.-13C>T upstream_gene_variant 0.2
panD 4044436 c.-155C>T upstream_gene_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243210 c.-23C>T upstream_gene_variant 0.33
embA 4244010 p.Thr260Ser missense_variant 0.5
embA 4244646 c.1417delG frameshift_variant 0.22
embA 4245769 p.Asn846Ser missense_variant 0.25
embA 4246185 p.Ala985Thr missense_variant 0.2
embB 4246325 c.-189G>A upstream_gene_variant 0.2
embB 4249517 p.His1002Tyr missense_variant 0.25
gid 4408136 p.Ala23Thr missense_variant 0.33
gid 4408156 p.Leu16Arg missense_variant 1.0