TB-Profiler result

Run: SRR21710922

Summary

Run ID: SRR21710922

Sample name:

Date: 04-04-2023 03:06:20

Number of reads: 337237

Percentage reads mapped: 99.56

Strain: lineage4.1.2

Drug-resistance: Other


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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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.2 Euro-American T;H 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
gid 4408087 c.115delC frameshift_variant 1.0 streptomycin
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 7323 p.Pro8Ala missense_variant 1.0
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 491591 p.Lys270Met missense_variant 1.0
mshA 576781 c.1434G>A synonymous_variant 0.29
ccsA 620752 p.Arg288Gly missense_variant 0.18
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 0.15
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765706 p.Lys779Asn missense_variant 0.17
rpoC 766767 p.His1133Leu missense_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776659 p.Asp608Asn missense_variant 1.0
mmpL5 777798 p.Thr228Lys missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800800 c.-9G>T upstream_gene_variant 0.17
fbiC 1305152 p.Pro741Leu missense_variant 0.1
Rv1258c 1407329 p.Ser4Arg missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474562 n.905G>C non_coding_transcript_exon_variant 0.67
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.13
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918554 c.615G>C synonymous_variant 0.14
ndh 2102047 c.996G>C synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.33
katG 2155059 c.1050_1052dupTTG disruptive_inframe_insertion 0.18
PPE35 2168501 p.Phe704Leu missense_variant 1.0
PPE35 2169901 p.Gly238Trp missense_variant 0.15
Rv1979c 2223186 c.-22C>A upstream_gene_variant 0.36
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288861 p.Glu127Asp missense_variant 0.25
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
folC 2746852 c.747G>A synonymous_variant 0.13
pepQ 2860451 c.-33G>T upstream_gene_variant 0.11
ribD 2986726 c.-113G>T upstream_gene_variant 0.18
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339208 p.Ser31Pro missense_variant 0.18
Rv3083 3448630 p.Gly43Ser missense_variant 0.22
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641975 c.441C>T synonymous_variant 0.14
alr 3840366 p.Pro352His missense_variant 0.15
ddn 3987020 c.177G>T synonymous_variant 0.11
clpC1 4038475 p.Ser744Gly missense_variant 0.15
embC 4240125 p.Cys88Tyr missense_variant 0.2
embC 4240307 p.Gly149Cys missense_variant 0.29
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4247121 p.Ser203Leu missense_variant 1.0
aftB 4267035 p.Arg601Leu missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0