TB-Profiler result

Run: SRR4033218
Summary

Run ID: SRR4033218

Sample name:

Date: 04-04-2023 05:55:26

Number of reads: 732520

Percentage reads mapped: 99.77

Strain: lineage4.8.1

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
lineage4.8.1 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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7380 p.Ser27Gly missense_variant 0.15
ccsA 620162 p.Leu91Arg missense_variant 0.14
rpoB 761099 c.1293C>T synonymous_variant 0.11
rpoB 762048 p.Glu748* stop_gained 0.13
rpoC 763818 p.Thr150Met missense_variant 0.11
rpoC 764268 p.Ala300Val missense_variant 0.22
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775945 p.Val846Ile missense_variant 0.13
mmpR5 779171 p.Ala61Val missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102352 p.Arg231Trp missense_variant 0.14
PPE35 2168149 p.Pro822Ser missense_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.36
Rv1979c 2222221 p.Ile315Thr missense_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyX 3068095 c.-150C>T upstream_gene_variant 0.12
thyA 3073806 c.666C>G synonymous_variant 0.29
fbiD 3339040 c.-78T>C upstream_gene_variant 1.0
fprA 3475287 c.1281C>T synonymous_variant 0.13
fprA 3475317 c.1311C>T synonymous_variant 0.12
fbiB 3641645 c.111A>G synonymous_variant 0.22
fbiB 3642874 p.Leu447Arg missense_variant 0.91
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267352 c.1485C>T synonymous_variant 0.11
ubiA 4269355 p.Arg160Leu missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408122 c.81G>T synonymous_variant 0.25
Rv3083 3448497 c.-6_*1408del transcript_ablation 1.0