TB-Profiler result

Run: SRR15316549
Summary

Run ID: SRR15316549

Sample name:

Date: 03-04-2023 13:38:14

Number of reads: 4575491

Percentage reads mapped: 63.3

Strain: lineage4.4.2

Drug-resistance: RR-TB

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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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.2 Euro-American T1;T2 None 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
rpoB 761155 p.Ser450Leu missense_variant 0.98 rifampicin
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.45 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
gyrB 5070 c.-170C>G upstream_gene_variant 0.96
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.18
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.26
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.27
rrs 1472128 n.283G>A non_coding_transcript_exon_variant 0.27
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.27
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.3
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.3
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.34
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.34
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.35
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.34
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.33
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.34
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.34
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.32
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.3
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.29
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.28
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.16
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.23
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.23
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.28
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.27
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.28
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.28
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.28
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.29
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.29
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.28
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.26
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.28
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.29
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.29
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.36
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.39
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.41
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.37
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.35
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.35
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.36
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.37
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.37
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.4
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.42
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.45
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.45
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.27
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.15
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.12
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.11
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.13
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.14
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.26
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.33
rrl 1476234 n.2577G>A non_coding_transcript_exon_variant 0.36
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.4
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.41
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.42
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.42
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.41
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.41
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.38
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.38
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.38
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.39
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.38
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.39
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.41
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.42
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.42
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.47
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.64
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.73
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.73
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.74
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.73
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.72
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.72
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.74
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.74
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.75
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.75
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.76
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.71
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.58
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.47
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.43
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.43
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.44
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.44
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.44
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.44
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.44
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.43
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.43
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.44
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.39
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.39
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.39
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.34
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154869 p.Leu415Val missense_variant 0.97
Rv1979c 2223293 c.-129A>G upstream_gene_variant 0.99
Rv2752c 3066099 p.Met31Ile missense_variant 0.99
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448348 c.-156G>A upstream_gene_variant 0.98
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4246508 c.-6G>A upstream_gene_variant 0.98
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 0.98
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408137 c.66C>T synonymous_variant 1.0