TB-Profiler result

Run: SRR13837992
Summary

Run ID: SRR13837992

Sample name:

Date: 03-04-2023 09:23:47

Number of reads: 884364

Percentage reads mapped: 95.31

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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
rpoB 760357 p.Thr184Ser missense_variant 0.14
rpoB 760361 c.555T>C synonymous_variant 0.14
rpoB 760370 c.564C>G synonymous_variant 0.14
rpoB 760382 c.576G>C synonymous_variant 0.13
rpoB 760388 c.582C>T synonymous_variant 0.12
rpoB 760430 c.624T>C synonymous_variant 0.12
rpoB 760460 c.654G>C synonymous_variant 0.12
rpoB 760475 c.669A>G synonymous_variant 0.14
rpoB 760481 c.675G>C synonymous_variant 0.14
rpoB 760484 c.678A>G synonymous_variant 0.15
rpoB 760541 c.735G>C synonymous_variant 0.12
rpoB 760728 p.Tyr308Asn missense_variant 1.0
rpoC 763928 p.Glu187* stop_gained 1.0
rpoC 764932 c.1563C>A synonymous_variant 0.14
rpoC 766155 p.Ala929Val missense_variant 1.0
mmpL5 777185 c.1296G>T synonymous_variant 1.0
fbiC 1302932 p.Val1Gly missense_variant 1.0
fbiC 1303151 p.Gly74Asp missense_variant 1.0
fbiC 1304895 c.1965C>A synonymous_variant 1.0
fbiC 1305298 p.Lys790Gln missense_variant 0.97
Rv1258c 1406311 c.1030C>T synonymous_variant 1.0
rrl 1476160 n.2503T>C non_coding_transcript_exon_variant 0.12
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.12
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.12
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.12
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.12
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.17
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.15
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.14
rrl 1476299 n.2642C>T non_coding_transcript_exon_variant 0.15
rpsA 1834275 p.Ile245Thr missense_variant 0.97
tlyA 1917936 c.-4C>A upstream_gene_variant 1.0
ndh 2101676 p.Ala456Val missense_variant 1.0
pncA 2289356 c.-115G>T upstream_gene_variant 1.0
kasA 2518234 p.Glu40Asp missense_variant 1.0
Rv2752c 3064837 p.Leu452Trp missense_variant 1.0
Rv3083 3449643 p.Asn380Lys missense_variant 1.0
fprA 3474752 p.Ile249Ser missense_variant 1.0
fprA 3475315 p.His437Asn missense_variant 1.0
Rv3236c 3611967 p.Ser384Pro missense_variant 1.0
rpoA 3877756 p.Ile251Thr missense_variant 1.0
rpoA 3878065 p.Pro148Arg missense_variant 0.97
ddn 3986977 p.Pro45Arg missense_variant 1.0
clpC1 4040538 p.Leu56Arg missense_variant 1.0
embA 4245342 p.Ser704Pro missense_variant 1.0
embB 4248711 c.2198_2199insT frameshift_variant 1.0
aftB 4267498 p.Glu447Lys missense_variant 1.0
aftB 4268559 p.Leu93Gln missense_variant 1.0