TB-Profiler result

Run: SRR3675466
Summary

Run ID: SRR3675466

Sample name:

Date: 04-04-2023 05:29:14

Number of reads: 962506

Percentage reads mapped: 99.16

Strain: lineage4.6

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
lineage4.6 Euro-American T;LAM 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
gyrB 6929 p.Ala564Pro missense_variant 0.17
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 491014 p.Thr78Pro missense_variant 0.24
ccsA 620746 p.Gly286Cys missense_variant 0.14
rpoC 762521 c.-849C>A upstream_gene_variant 0.15
rpoC 763644 p.Met92Thr missense_variant 1.0
rpoC 764067 p.Gln233Arg missense_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777128 c.1353A>G synonymous_variant 0.11
mmpS5 778824 c.81delG frameshift_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406902 p.Glu147Lys missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474628 n.971C>T non_coding_transcript_exon_variant 0.14
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.18
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.17
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.18
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.15
fabG1 1673346 c.-94C>G upstream_gene_variant 0.1
fabG1 1673357 c.-83G>A upstream_gene_variant 0.12
fabG1 1673359 c.-81T>C upstream_gene_variant 0.12
fabG1 1673361 c.-79C>G upstream_gene_variant 0.12
fabG1 1673380 c.-60C>G upstream_gene_variant 0.22
inhA 1673590 c.-612G>A upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167734 p.Pro960Gln missense_variant 0.14
PPE35 2167999 p.Pro872Thr missense_variant 0.13
PPE35 2168080 p.Thr845Ala missense_variant 1.0
PPE35 2168223 p.Pro797Leu missense_variant 0.22
PPE35 2169902 c.711G>C synonymous_variant 0.11
PPE35 2170048 p.Leu189Val missense_variant 0.52
PPE35 2170053 p.Thr187Ser missense_variant 0.57
PPE35 2170198 p.Ala139Thr missense_variant 1.0
PPE35 2170792 c.-180T>C upstream_gene_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518197 p.Asp28Ala missense_variant 0.18
folC 2746323 p.Gly426Arg missense_variant 0.12
folC 2746619 p.Arg327Leu missense_variant 0.12
thyX 3067952 c.-7G>T upstream_gene_variant 0.15
thyX 3067954 c.-9G>C upstream_gene_variant 0.15
thyX 3067955 c.-10G>C upstream_gene_variant 0.15
thyX 3067957 c.-12A>C upstream_gene_variant 0.15
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474455 p.Ala150Asp missense_variant 0.15
Rv3236c 3612881 p.Ala79Glu missense_variant 0.15
fbiB 3642838 p.Leu435Ser missense_variant 0.11
ddn 3986844 c.1A>G start_lost 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244834 c.1602G>A synonymous_variant 0.17
embB 4246544 p.Thr11Pro missense_variant 0.15
embB 4246548 p.Pro12Gln missense_variant 0.25
embB 4246555 c.42G>C synonymous_variant 0.26
embB 4246556 p.Ala15Pro missense_variant 0.26
embB 4246563 p.Leu17Trp missense_variant 0.19
embB 4246567 c.54G>T synonymous_variant 0.13
aftB 4268686 p.Gln51Lys missense_variant 0.33
whiB6 4338595 c.-75delG upstream_gene_variant 1.0