TB-Profiler result

Run: SRR10809127
Summary

Run ID: SRR10809127

Sample name:

Date: 02-04-2023 19:24:21

Number of reads: 700791

Percentage reads mapped: 99.47

Strain: lineage4.2

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
lineage4.2 Euro-American H;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
gyrA 6415 c.-887G>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8563 p.Leu421Pro missense_variant 0.1
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491114 p.Leu111Pro missense_variant 0.18
fgd1 491310 c.528C>G synonymous_variant 0.22
mshA 576077 c.730C>T synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.18
rpoB 759638 c.-169T>A upstream_gene_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304826 c.1900delT frameshift_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.25
fabG1 1673357 c.-83G>A upstream_gene_variant 0.11
fabG1 1673359 c.-81T>C upstream_gene_variant 0.11
fabG1 1673361 c.-79C>G upstream_gene_variant 0.11
fabG1 1673380 c.-60C>G upstream_gene_variant 0.35
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103077 c.-35G>A upstream_gene_variant 0.11
PPE35 2168175 p.Gln813Arg missense_variant 0.15
PPE35 2169198 p.Val472Ala missense_variant 0.18
PPE35 2169442 p.Ala391Thr missense_variant 0.12
PPE35 2170048 p.Leu189Val missense_variant 0.39
PPE35 2170053 p.Thr187Ser missense_variant 0.39
Rv1979c 2221741 p.Gly475Asp missense_variant 0.14
Rv1979c 2222288 p.Ala293Thr missense_variant 0.17
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518241 p.Ile43Phe missense_variant 0.11
eis 2714575 p.Trp253Leu missense_variant 0.15
Rv2752c 3066280 c.-89C>T upstream_gene_variant 1.0
thyX 3067340 c.606G>A synonymous_variant 0.13
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086870 c.51C>T synonymous_variant 0.17
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612469 c.648A>G synonymous_variant 1.0
Rv3236c 3613061 p.Ala19Gly missense_variant 0.15
alr 3841567 c.-147A>G upstream_gene_variant 1.0
rpoA 3878184 c.324C>A synonymous_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243576 p.Val115Asp missense_variant 0.15
embA 4246512 p.Pro1094Ser missense_variant 1.0
embB 4246548 p.Pro12Gln missense_variant 0.33
embB 4246555 c.42G>C synonymous_variant 0.5
embB 4246556 p.Ala15Pro missense_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0