TB-Profiler result

Run: SRR4035993

Summary

Run ID: SRR4035993

Sample name:

Date: 04-04-2023 07:25:39

Number of reads: 781936

Percentage reads mapped: 99.69

Strain: lineage4.4.1.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans None 0.99
lineage4.4.1.1.1 Euro-American S;Orphans 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 7017 p.Ala593Val missense_variant 0.2
gyrB 7265 c.2017delA frameshift_variant 0.14
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9103 p.Ala601Asp missense_variant 0.13
gyrA 9177 p.Ala626Thr missense_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9399 p.Val700Met missense_variant 0.17
fgd1 491592 p.Lys270Asn missense_variant 0.15
fgd1 491607 c.825G>A synonymous_variant 0.14
mshA 575564 p.Leu73Val missense_variant 0.18
rpoC 764510 p.Leu381Met missense_variant 0.12
rpoC 766162 c.2795_2797dupAGG disruptive_inframe_insertion 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776786 p.Glu565Asp missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781514 c.-46G>T upstream_gene_variant 0.15
rplC 801008 p.Thr67Lys missense_variant 0.13
fbiC 1304229 p.Met433Ile missense_variant 0.18
Rv1258c 1406107 p.Asp412Asn missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473657 n.-1T>G upstream_gene_variant 0.14
fabG1 1673714 p.Ser92Tyr missense_variant 0.15
fabG1 1673806 p.Ala123Thr missense_variant 0.14
inhA 1674289 p.Gln30Lys missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918345 p.Ala136Thr missense_variant 0.12
ndh 2102461 c.582G>A synonymous_variant 0.22
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2154370 p.Val581Ala missense_variant 0.19
katG 2156489 c.-378C>A upstream_gene_variant 0.13
PPE35 2168688 p.Pro642His missense_variant 0.13
PPE35 2169320 p.Leu431Phe missense_variant 0.53
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518456 c.342C>T synonymous_variant 0.11
kasA 2518937 p.Phe275Leu missense_variant 0.12
eis 2714182 p.Arg384His missense_variant 0.12
eis 2714502 p.His277Gln missense_variant 0.14
folC 2746394 p.Val402Ala missense_variant 0.14
folC 2747591 p.Ser3Leu missense_variant 0.14
Rv2752c 3065110 p.Arg361Ile missense_variant 0.14
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474505 c.500delT frameshift_variant 0.11
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3642522 p.Ala330Ser missense_variant 0.12
fbiB 3642616 p.Pro361His missense_variant 0.12
alr 3841081 p.His114Tyr missense_variant 0.18
clpC1 4040457 c.247delC frameshift_variant 0.13
embC 4241436 p.Ala525Asp missense_variant 0.27
embC 4241992 c.2130T>C synonymous_variant 0.12
embC 4242337 c.2476delA frameshift_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244545 p.Ala438Gly missense_variant 0.14
embA 4245853 p.Ala874Val missense_variant 0.13
aftB 4267131 p.Pro569His missense_variant 0.12
aftB 4267276 c.1560delG frameshift_variant 0.11
aftB 4267836 p.Met334Thr missense_variant 0.22
ethR 4326946 c.-603C>T upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408003 c.199dupG frameshift_variant 0.14