TB-Profiler result

Run: SRR6045232
Summary

Run ID: SRR6045232

Sample name:

Date: 04-04-2023 11:55:10

Number of reads: 1459727

Percentage reads mapped: 90.74

Strain: lineage4.1.1.3

Drug-resistance: Other

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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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.3 Euro-American (X-type) X1;X3 RD193 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.38 streptomycin
tlyA 1918030 c.92_95delAGGT frameshift_variant 0.17 capreomycin
tlyA 1918048 c.109_110insACCT frameshift_variant 0.13 capreomycin
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 5248 c.9C>T synonymous_variant 1.0
gyrB 5805 p.Thr189Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 765150 p.Gly594Glu 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 1472137 n.292G>A non_coding_transcript_exon_variant 0.2
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.18
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.18
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.11
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.12
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.11
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.11
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.11
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.14
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.2
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.38
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.38
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.5
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.5
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.56
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.59
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.54
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.58
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.58
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.56
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.26
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.41
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.36
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.36
rrs 1472670 n.825G>T non_coding_transcript_exon_variant 0.22
rrs 1472673 n.828T>A non_coding_transcript_exon_variant 0.18
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.22
rrs 1472677 n.832C>T non_coding_transcript_exon_variant 0.22
rrs 1472681 n.837_838delTT non_coding_transcript_exon_variant 0.24
rrs 1472687 n.843dupT non_coding_transcript_exon_variant 0.19
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.23
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.24
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.33
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.35
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.38
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.38
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.48
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.62
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.56
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.14
rrs 1473043 n.1198G>T non_coding_transcript_exon_variant 0.22
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.13
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.13
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.13
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 0.14
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 0.17
rrl 1474184 n.527C>G non_coding_transcript_exon_variant 0.17
rrl 1474185 n.528G>A non_coding_transcript_exon_variant 0.17
rrl 1474186 n.529A>G non_coding_transcript_exon_variant 0.17
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.2
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 0.2
rrl 1474200 n.545delT non_coding_transcript_exon_variant 0.2
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.18
rrl 1474742 n.1085A>C non_coding_transcript_exon_variant 0.17
rrl 1474747 n.1090C>A non_coding_transcript_exon_variant 0.17
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.18
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.15
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.11
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.1
rrl 1475758 n.2104dupC non_coding_transcript_exon_variant 1.0
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.11
rrl 1475767 n.2110G>T non_coding_transcript_exon_variant 0.12
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.14
rrl 1475783 n.2126T>G non_coding_transcript_exon_variant 0.32
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.41
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.39
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.39
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.39
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.15
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.17
rrl 1475874 n.2217C>T non_coding_transcript_exon_variant 0.17
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.12
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.12
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.12
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.16
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.16
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.15
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.15
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.15
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.11
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.11
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.11
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.11
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.11
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.11
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.11
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.12
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.12
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.12
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.2
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.32
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.37
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.5
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.54
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.54
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.46
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.46
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.43
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.54
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.5
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.54
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.3
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918037 p.Arg33Pro missense_variant 0.15
tlyA 1918039 p.Ile34Val missense_variant 0.15
tlyA 1918044 c.105C>T synonymous_variant 0.14
tlyA 1918046 p.Gly36Ala missense_variant 0.13
PPE35 2170066 p.Ala183Thr missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0