TB-Profiler result

Run: ERR11049033
Summary

Run ID: ERR11049033

Sample name:

Date: 31-03-2023 07:03:07

Number of reads: 501761

Percentage reads mapped: 99.61

Strain: lineage4.8

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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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 9011 c.1710C>T synonymous_variant 1.0
mshA 576776 p.Gly477Arg missense_variant 0.15
rpoB 762110 c.2304G>A synonymous_variant 0.12
rpoB 762163 p.Ile786Ser missense_variant 0.2
rpoB 762594 p.Leu930Met missense_variant 0.14
rpoC 764367 p.Gly333Ala missense_variant 0.5
rpoC 767229 p.Ser1287Leu missense_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776207 c.2274G>T synonymous_variant 0.11
mmpL5 776739 p.Ile581Thr missense_variant 1.0
rpsL 781383 c.-177G>A upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781874 p.Gln105His missense_variant 1.0
rplC 800946 c.138T>A synonymous_variant 0.14
fbiC 1303155 c.225G>C synonymous_variant 0.4
fbiC 1304254 p.Ala442Thr missense_variant 0.13
Rv1258c 1406455 p.Leu296Val missense_variant 0.15
Rv1258c 1406995 p.Phe116Val missense_variant 0.15
embR 1416974 p.Ala125Gly missense_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471800 n.-45_-38delATTTCTAA upstream_gene_variant 1.0
rrs 1472556 n.711C>T non_coding_transcript_exon_variant 0.29
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1475511 n.1854G>A non_coding_transcript_exon_variant 0.25
fabG1 1673549 p.Ala37Asp missense_variant 0.3
inhA 1674830 p.Glu210Val missense_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918151 p.Val71Gly missense_variant 0.2
tlyA 1918514 p.Val192Gly missense_variant 0.22
ndh 2102852 c.190delT frameshift_variant 0.12
katG 2154696 c.1416A>G synonymous_variant 0.14
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2168222 c.2390delC frameshift_variant 0.17
PPE35 2168307 p.Phe769Ser missense_variant 0.22
PPE35 2168745 p.Gly623Asp missense_variant 1.0
Rv1979c 2222826 p.Phe113Leu missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288923 p.Glu107Lys missense_variant 0.18
kasA 2519071 p.Asp319Glu missense_variant 0.67
folC 2746584 p.Leu339Val missense_variant 0.25
folC 2747226 p.Arg125Gly missense_variant 0.13
pepQ 2860203 p.Glu72Asp missense_variant 0.2
ribD 2986868 c.30T>A synonymous_variant 0.13
Rv2752c 3064823 p.Val457Leu missense_variant 0.6
Rv2752c 3065028 c.1164G>A synonymous_variant 0.18
thyX 3067320 p.Arg209Gln missense_variant 0.33
fbiD 3339053 c.-65G>C upstream_gene_variant 0.2
fbiA 3640882 p.Val114Met missense_variant 0.12
fbiB 3642432 c.898C>T synonymous_variant 0.12
alr 3841566 c.-146C>T upstream_gene_variant 0.12
clpC1 4038725 c.1980C>T synonymous_variant 0.15
clpC1 4040550 p.Leu52Trp missense_variant 0.15
panD 4044367 c.-86A>T upstream_gene_variant 0.11
embC 4241007 p.Ala382Val missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4246302 p.Ser1024Arg missense_variant 0.14
embB 4247145 p.Ser211Phe missense_variant 1.0
embB 4248328 c.1815G>C synonymous_variant 0.3
embB 4249268 p.Asp919Asn missense_variant 0.12
embB 4249354 c.2841G>C synonymous_variant 1.0
aftB 4267153 p.Ala562Pro missense_variant 0.22
aftB 4267165 p.Trp558Gly missense_variant 0.22
aftB 4268952 c.-116G>C upstream_gene_variant 0.17
whiB6 4338200 p.Asp108His missense_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407720 c.483C>T synonymous_variant 0.17
gid 4408096 p.Val36Gly missense_variant 0.4
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0