TB-Profiler result

Run: SRR4035790
Summary

Run ID: SRR4035790

Sample name:

Date: 04-04-2023 07:18:01

Number of reads: 1588862

Percentage reads mapped: 99.47

Strain: lineage4.1.2

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8061 p.Arg254Cys missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575390 p.Gln15Lys missense_variant 0.13
mshA 575423 p.Arg26Ser missense_variant 0.18
mshA 576223 c.876G>A synonymous_variant 0.22
mshA 576777 p.Gly477Val missense_variant 0.12
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761743 c.1939delG frameshift_variant 0.13
rpoB 761950 p.Val715Ala missense_variant 0.11
rpoC 764263 c.894G>A synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 766555 p.Tyr1062* stop_gained 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776136 p.Ser782Cys missense_variant 0.11
mmpL5 777320 c.1161C>G synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781541 c.-19C>A upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1674947 p.Trp249Leu missense_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2153950 p.Val721Ala missense_variant 0.12
PPE35 2167752 p.Ala954Val missense_variant 0.12
PPE35 2169320 p.Leu431Phe missense_variant 0.36
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746223 c.1375delG frameshift_variant 0.11
Rv2752c 3066149 p.Gly15Trp missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339553 p.Thr146Ala missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474152 p.Val49Ala missense_variant 0.12
fprA 3474786 c.780C>A synonymous_variant 0.18
fprA 3475022 p.Gly339Val missense_variant 0.22
Rv3236c 3611974 c.1143A>C synonymous_variant 1.0
fbiB 3641955 p.Gly141Arg missense_variant 0.13
fbiB 3642024 p.Ala164Thr missense_variant 0.12
fbiB 3642300 p.Ala256Thr missense_variant 0.14
alr 3841207 p.His72Asn missense_variant 0.17
clpC1 4039420 p.Ala429Ser missense_variant 0.14
embC 4240817 p.Thr319Ala missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243390 p.Gly53Val missense_variant 0.12
embA 4243479 p.Pro83Ser missense_variant 0.11
embA 4245485 c.2255dupC frameshift_variant 0.12
embA 4246153 p.Ala974Val missense_variant 0.12
embB 4246851 p.Ala113Val missense_variant 0.14
aftB 4268260 p.Gly193Cys missense_variant 0.18
aftB 4268435 p.Phe134Leu missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0