TB-Profiler result

Run: SRR6982267

Summary

Run ID: SRR6982267

Sample name:

Date: 04-04-2023 18:32:20

Number of reads: 347620

Percentage reads mapped: 99.81

Strain: lineage4.8

Drug-resistance: Sensitive


Download CSV Download TXT Download PDF Download JSON
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 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 5345 p.Ser36Pro missense_variant 0.1
gyrB 5538 p.Met100Lys missense_variant 0.1
gyrB 6176 p.Gly313Ser missense_variant 0.17
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7872 p.Pro191Thr missense_variant 0.12
fgd1 490952 p.Trp57Leu missense_variant 0.11
mshA 576227 p.Arg294Cys missense_variant 0.15
ccsA 619908 c.18C>T synonymous_variant 1.0
rpoB 759625 c.-182C>A upstream_gene_variant 0.18
rpoB 759871 p.Ser22Leu missense_variant 0.15
rpoB 760316 c.510C>A synonymous_variant 0.11
rpoB 761385 p.Ala527Thr missense_variant 0.13
rpoC 764300 p.Gly311Cys missense_variant 0.18
rpoC 765691 c.2322G>A synonymous_variant 0.18
rpoC 766302 p.Cys978Phe missense_variant 0.11
rpoC 767269 c.3900C>A synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776050 p.Ser811Pro missense_variant 0.12
mmpL5 776176 p.Ser769Pro missense_variant 0.17
mmpL5 778957 c.-477C>T upstream_gene_variant 0.12
mmpS5 779526 c.-621G>A upstream_gene_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800906 p.Pro33His missense_variant 0.21
fbiC 1303024 c.94C>A synonymous_variant 0.13
fbiC 1303272 c.342A>G synonymous_variant 0.11
fbiC 1305003 c.2073C>A synonymous_variant 0.12
fbiC 1305259 p.Leu777Met missense_variant 0.15
fbiC 1305328 p.Leu800Val missense_variant 0.12
fbiC 1305369 p.Glu813Asp missense_variant 0.17
atpE 1460893 c.-152A>G upstream_gene_variant 0.2
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471958 n.113T>A non_coding_transcript_exon_variant 0.12
rrs 1472137 n.292G>T non_coding_transcript_exon_variant 0.2
rrs 1472560 n.715G>T non_coding_transcript_exon_variant 0.1
rrs 1472685 n.840G>A non_coding_transcript_exon_variant 0.14
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474144 n.487G>A non_coding_transcript_exon_variant 1.0
rpsA 1834303 c.762T>A synonymous_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101849 c.1194G>A synonymous_variant 0.12
ndh 2102636 p.Pro136His missense_variant 0.15
katG 2154487 p.Asp542Gly missense_variant 0.12
Rv1979c 2221895 p.Val424Ile missense_variant 0.1
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289760 c.-519C>A upstream_gene_variant 0.15
pncA 2289957 c.-716G>C upstream_gene_variant 0.11
ahpC 2726726 p.Trp178Cys missense_variant 1.0
folC 2747661 c.-71_-64delAAGATCCG upstream_gene_variant 0.12
pepQ 2860188 c.231C>A synonymous_variant 0.18
pepQ 2860376 p.Ala15Ser missense_variant 0.11
pepQ 2860423 c.-5G>T upstream_gene_variant 0.11
Rv2752c 3064883 p.Ser437Gly missense_variant 1.0
Rv2752c 3065168 p.Pro342Thr missense_variant 0.11
Rv2752c 3065949 p.His81Gln missense_variant 0.11
ald 3086646 c.-174G>A upstream_gene_variant 0.5
ald 3087332 c.513C>A synonymous_variant 0.12
Rv3083 3448332 c.-172C>T upstream_gene_variant 0.22
whiB7 3568503 c.177G>T synonymous_variant 0.12
whiB7 3568662 c.18C>T synonymous_variant 1.0
fbiB 3640899 c.-636G>T upstream_gene_variant 0.14
fbiB 3641779 p.Ala82Glu missense_variant 0.22
fbiB 3641894 c.360G>T synonymous_variant 0.15
fbiB 3642483 p.Trp317Arg missense_variant 0.14
rpoA 3877546 p.Ala321Glu missense_variant 0.2
rpoA 3877654 p.Asp285Gly missense_variant 0.18
rpoA 3878125 p.Leu128Pro missense_variant 0.11
rpoA 3878410 p.Thr33Asn missense_variant 0.22
clpC1 4038529 p.Glu726Lys missense_variant 0.15
clpC1 4039377 p.Asp443Val missense_variant 0.11
embC 4239975 p.Leu38Arg missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245918 c.2690delG frameshift_variant 0.29
embB 4246082 c.-432T>G upstream_gene_variant 0.33
embB 4246232 c.-282C>A upstream_gene_variant 0.2
embB 4248245 p.Ile578Val missense_variant 0.18
embB 4249399 c.2886G>A synonymous_variant 0.2
aftB 4267263 c.1573delC frameshift_variant 0.25
ubiA 4269864 c.-32delG upstream_gene_variant 0.2
ethA 4326489 p.Ser329Pro missense_variant 0.2
ethA 4326834 p.Ser214Thr missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0