TB-Profiler result

Run: SRR4033454
Summary

Run ID: SRR4033454

Sample name:

Date: 04-04-2023 06:06:36

Number of reads: 1002234

Percentage reads mapped: 99.66

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 0.98
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
rpoB 760719 p.Val305Phe missense_variant 0.2
rpoB 761152 p.Leu449Pro missense_variant 0.15
rpoC 762665 c.-705G>A upstream_gene_variant 0.14
rpoC 762710 c.-660G>T upstream_gene_variant 0.15
rpoC 764543 c.1176delC frameshift_variant 0.22
rpoC 764907 p.Glu513Gly missense_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800859 p.Phe17Leu missense_variant 0.12
embR 1417029 p.Asp107His missense_variant 0.15
atpE 1460970 c.-75A>T upstream_gene_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472337 n.492C>T non_coding_transcript_exon_variant 1.0
rrs 1472835 n.990T>A non_coding_transcript_exon_variant 0.18
rrl 1474099 n.442G>A non_coding_transcript_exon_variant 0.14
fabG1 1673641 p.Val68Ile missense_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102864 p.Thr60Ser missense_variant 0.12
PPE35 2167989 p.Thr875Ile missense_variant 0.17
PPE35 2169395 c.1218C>G synonymous_variant 0.15
PPE35 2169714 p.Gly300Ala missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3065398 p.Ser265Leu missense_variant 0.17
Rv2752c 3065707 p.Ala162Val missense_variant 0.2
Rv2752c 3066391 c.-200C>T upstream_gene_variant 0.18
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086987 p.Gln56His missense_variant 0.11
ald 3086992 p.Val58Gly missense_variant 0.12
ald 3086995 p.Gly59Asp missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474739 p.Cys245Arg missense_variant 0.18
Rv3236c 3612856 c.261C>T synonymous_variant 0.14
Rv3236c 3612868 c.249C>A synonymous_variant 0.13
fbiB 3641259 c.-276G>A upstream_gene_variant 0.13
alr 3840762 p.Ala220Gly missense_variant 0.13
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4239720 c.-143G>T upstream_gene_variant 0.22
embC 4240388 p.Asn176Asp missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ubiA 4269481 p.Trp118* stop_gained 0.13
ethA 4327672 c.-199G>A upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0