TB-Profiler result

Run: SRR6982322
Summary

Run ID: SRR6982322

Sample name:

Date: 04-04-2023 18:34:01

Number of reads: 689037

Percentage reads mapped: 94.11

Strain: lineage4.8.1

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 0.99
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.96
lineage4.8.1 Euro-American (mainly T) T1;T2;T3;T5 RD219 0.95
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
rpoB 759620 c.-187A>C upstream_gene_variant 0.19
mmpL5 775602 p.Thr960Asn missense_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406638 c.702dupC frameshift_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.1
rrs 1473080 n.1235C>G non_coding_transcript_exon_variant 0.11
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.12
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 0.95
rrl 1475111 n.1454G>T non_coding_transcript_exon_variant 0.13
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.22
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.24
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.24
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.21
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.21
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.2
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.2
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.2
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.21
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.2
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.19
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.2
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.2
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.21
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.16
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.12
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.11
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.11
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.13
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.15
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.17
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.17
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.18
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.2
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.16
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.14
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.14
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.13
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.13
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.13
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.14
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.14
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.13
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.14
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.14
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.15
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.14
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.13
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.15
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.17
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.17
rrl 1476601 n.2944G>A non_coding_transcript_exon_variant 0.17
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.16
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918372 p.Gly145Cys missense_variant 0.2
PPE35 2168149 p.Pro822Ser missense_variant 0.89
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518625 p.Cys171Arg missense_variant 0.1
folC 2746694 p.Ala302Val missense_variant 0.15
fbiD 3339040 c.-78T>C upstream_gene_variant 0.96
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448987 p.Arg162Gly missense_variant 1.0
fbiB 3642874 p.Leu447Arg missense_variant 0.88
rpoA 3878319 p.Phe63Leu missense_variant 0.17
rpoA 3878408 p.Leu34Met missense_variant 0.19
clpC1 4038287 c.2418C>T synonymous_variant 0.12
clpC1 4039202 p.Glu501Asp missense_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243810 p.Thr193Ile missense_variant 0.12
embA 4244968 p.Gly579Val missense_variant 0.12
embA 4245419 c.2187G>C synonymous_variant 0.12
embB 4249766 p.Arg1085Ser missense_variant 0.15
aftB 4267686 p.Gly384Val missense_variant 0.12
aftB 4267957 p.Leu294Met missense_variant 0.12
aftB 4268531 c.306C>A synonymous_variant 0.4
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0