TB-Profiler result

Run: SRR10033113

Summary

Run ID: SRR10033113

Sample name:

Date: 02-04-2023 14:22:37

Number of reads: 955928

Percentage reads mapped: 91.13

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 0.99
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 6070 c.835delT frameshift_variant 0.2
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 491591 p.Lys270Met missense_variant 1.0
mshA 575411 p.Glu22* stop_gained 0.12
mshA 575679 p.Asn111Ser missense_variant 1.0
mshA 576099 p.Asp251Gly missense_variant 0.2
ccsA 619817 c.-74C>A upstream_gene_variant 0.29
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 761029 p.Pro408Leu missense_variant 0.1
rpoC 763431 p.Arg21Met missense_variant 0.11
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777177 p.Glu435Gly missense_variant 0.5
mmpS5 778844 p.Ala21Val missense_variant 0.14
mmpR5 779252 p.Asp88Gly missense_variant 0.2
mmpS5 779564 c.-660delG upstream_gene_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304933 p.Ala668Asp missense_variant 0.18
Rv1258c 1406863 c.473_477delCGGCC frameshift_variant 0.11
Rv1258c 1406919 p.Arg141His missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473062 n.1222_1223delCA non_coding_transcript_exon_variant 0.15
rrl 1473696 n.39T>A non_coding_transcript_exon_variant 0.13
rrl 1474611 n.954A>T non_coding_transcript_exon_variant 0.1
rrl 1474793 n.1136C>T non_coding_transcript_exon_variant 0.4
rrl 1475249 n.1592T>C non_coding_transcript_exon_variant 0.18
rrl 1475273 n.1616T>C non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918445 p.Gly169Glu missense_variant 0.13
ndh 2102404 c.639G>A synonymous_variant 0.25
katG 2155165 p.Gly316Val missense_variant 0.11
PPE35 2167720 c.2892delC frameshift_variant 0.15
PPE35 2168344 p.Gly757Ser missense_variant 0.11
Rv1979c 2223145 p.Arg7Lys missense_variant 0.14
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289873 c.-632C>A upstream_gene_variant 0.11
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
kasA 2518734 p.Ile207Asn missense_variant 0.17
eis 2714811 c.522G>A synonymous_variant 0.1
folC 2746342 c.1257G>A synonymous_variant 0.17
folC 2746581 p.Glu340Lys missense_variant 0.33
pepQ 2859402 c.1016delA frameshift_variant 0.22
ribD 2986679 c.-160G>T upstream_gene_variant 0.38
Rv2752c 3064751 p.Arg481Cys missense_variant 1.0
Rv2752c 3066250 c.-62_-60delCCG upstream_gene_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086851 p.Asn11Ile missense_variant 0.22
ald 3087205 p.Leu129Arg missense_variant 0.14
ald 3087415 p.Ile199Asn missense_variant 0.15
Rv3083 3448631 p.Gly43Val missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475082 p.Trp359* stop_gained 0.11
fbiA 3640379 c.-164T>C upstream_gene_variant 1.0
fbiB 3640686 c.-849C>T upstream_gene_variant 0.22
fbiA 3640800 c.259delC frameshift_variant 0.12
clpC1 4038275 c.2430A>G synonymous_variant 0.13
embC 4239674 c.-189C>A upstream_gene_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4246467 p.Ile1079Phe missense_variant 0.11
aftB 4268543 c.294C>A synonymous_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0