TB-Profiler result

Run: ERR4818734
Summary

Run ID: ERR4818734

Sample name:

Date: 01-04-2023 15:43:24

Number of reads: 461007

Percentage reads mapped: 98.62

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 8268 p.Val323Leu missense_variant 0.29
gyrA 8382 p.Leu361Met missense_variant 0.29
gyrA 9771 p.Asp824Tyr missense_variant 0.17
fgd1 490756 c.-27T>C upstream_gene_variant 0.5
rpoB 760139 c.333A>T synonymous_variant 0.11
rpoB 760563 p.Arg253Met missense_variant 0.17
rpoB 760577 c.771G>A synonymous_variant 0.18
rpoB 761486 c.1680C>A synonymous_variant 0.12
rpoC 763890 p.Ala174Glu missense_variant 0.15
rpsL 781731 p.Thr58Ala missense_variant 0.22
Rv1258c 1406566 p.Gln259* stop_gained 0.14
Rv1258c 1407127 p.Arg72Cys missense_variant 0.25
embR 1416472 c.876G>A synonymous_variant 0.12
embR 1416547 c.801A>G synonymous_variant 0.12
embR 1416563 p.Ala262Val missense_variant 0.12
embR 1417352 c.-5C>A upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.33
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.29
rrl 1476422 n.2765C>G non_coding_transcript_exon_variant 0.25
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.25
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.25
rrl 1476431 n.2774G>C non_coding_transcript_exon_variant 0.29
fabG1 1673764 p.Ile109Val missense_variant 0.33
ndh 2103007 c.36T>A synonymous_variant 0.22
katG 2156499 c.-388C>A upstream_gene_variant 0.11
PPE35 2169659 c.954C>T synonymous_variant 0.29
kasA 2518124 p.Pro4Thr missense_variant 0.5
eis 2714237 p.Ala366Thr missense_variant 0.18
eis 2714792 p.Arg181* stop_gained 0.17
eis 2715144 c.189G>T synonymous_variant 0.22
eis 2715390 c.-58C>A upstream_gene_variant 0.13
Rv2752c 3064566 c.1626G>A synonymous_variant 0.12
Rv2752c 3064787 c.1404delG frameshift_variant 0.15
ald 3086710 c.-110T>C upstream_gene_variant 0.33
ald 3087173 p.Glu118Asp missense_variant 0.12
ald 3087858 p.Glu347* stop_gained 0.13
Rv3083 3448509 p.Asn2Lys missense_variant 0.15
fprA 3473960 c.-47T>C upstream_gene_variant 0.18
fprA 3474125 p.Glu40Gly missense_variant 0.12
whiB7 3568655 p.Gln9* stop_gained 0.22
fbiA 3640927 p.Thr129Ser missense_variant 0.18
alr 3840862 p.Ala187Ser missense_variant 0.2
clpC1 4039674 p.Pro344Gln missense_variant 0.11
clpC1 4040132 c.573C>A synonymous_variant 0.22
panD 4044192 c.90C>A synonymous_variant 0.17
panD 4044327 c.-46G>T upstream_gene_variant 0.17
embC 4239707 c.-155delA upstream_gene_variant 0.14
embC 4241830 p.Lys656Asn missense_variant 0.4
embA 4242472 c.-761G>C upstream_gene_variant 0.11
embA 4243846 p.Ala205Val missense_variant 0.2
embA 4243924 p.Arg231His missense_variant 0.13
embB 4246701 p.Gln63Arg missense_variant 0.1
embB 4246862 c.350_351delTC frameshift_variant 0.18
embB 4247910 p.Leu466Ser missense_variant 0.1
embB 4248396 p.Phe628Ser missense_variant 0.11
embB 4248759 p.Leu749Pro missense_variant 0.14
aftB 4267218 p.Asp540Gly missense_variant 0.14
aftB 4269804 c.-968G>A upstream_gene_variant 0.5
ethA 4326686 p.Met263Thr missense_variant 0.2
ethR 4327743 p.Phe65Leu missense_variant 0.14
gid 4408088 p.Arg39Cys missense_variant 0.2