TB-Profiler result

Run: SRR4034564
Summary

Run ID: SRR4034564

Sample name:

Date: 04-04-2023 06:53:19

Number of reads: 648104

Percentage reads mapped: 99.5

Strain: lineage4.1.2

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
lineage4.1 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
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 5820 p.Leu194Pro missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8061 p.Arg254Cys missense_variant 1.0
gyrA 8179 p.Asp293Gly missense_variant 0.11
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
mshA 575619 p.Arg91Gln missense_variant 0.2
ccsA 619886 c.-5G>A upstream_gene_variant 0.22
rpoB 760115 c.309C>T synonymous_variant 1.0
rpoB 760224 p.Glu140* stop_gained 0.18
rpoC 764263 c.894G>A synonymous_variant 1.0
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777320 c.1161C>G synonymous_variant 1.0
mmpL5 778132 p.Gln117* stop_gained 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800926 p.Arg40Ser missense_variant 0.14
rplC 801154 p.Gly116Cys missense_variant 0.15
fbiC 1303554 c.624G>A synonymous_variant 0.11
fbiC 1303824 p.Lys298Asn missense_variant 0.11
atpE 1461052 p.Pro3His missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476402 n.2745C>T non_coding_transcript_exon_variant 0.18
fabG1 1673782 p.Gly115Trp missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169391 p.Asn408Asp missense_variant 0.18
PPE35 2169445 c.1167delC frameshift_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289191 c.51C>A synonymous_variant 0.14
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
eis 2715178 p.Ala52Val missense_variant 0.13
ribD 2986838 c.-1C>A upstream_gene_variant 0.18
ribD 2986935 p.Asp33Tyr missense_variant 0.17
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087817 p.Cys333Tyr missense_variant 0.25
Rv3083 3449365 p.Pro288Thr missense_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568424 p.Pro86Ser missense_variant 0.18
whiB7 3568738 c.-59C>A upstream_gene_variant 0.17
Rv3236c 3611974 c.1143A>C synonymous_variant 1.0
Rv3236c 3612698 p.Leu140Pro missense_variant 0.18
Rv3236c 3613099 c.18G>A synonymous_variant 0.14
fbiA 3641498 p.Met319Lys missense_variant 0.33
fbiB 3641686 p.Lys51Arg missense_variant 0.17
fbiB 3641723 c.192delC frameshift_variant 0.13
fbiB 3641955 p.Gly141Arg missense_variant 0.29
rpoA 3878478 c.30C>T synonymous_variant 0.2
ddn 3987062 c.219C>A synonymous_variant 0.13
clpC1 4040005 p.Val234Met missense_variant 0.13
panD 4044445 c.-164G>T upstream_gene_variant 0.13
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243433 c.207_208dupGC frameshift_variant 0.14
embA 4244683 p.Arg484His missense_variant 0.12
embB 4249353 p.Arg947Gln missense_variant 0.29
aftB 4267138 p.Gln567* stop_gained 0.12
aftB 4267590 p.Gln416Arg missense_variant 0.12
aftB 4269375 c.-539G>A upstream_gene_variant 0.18
ethR 4327144 c.-405C>A upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407689 p.Arg172Trp missense_variant 0.12