TB-Profiler result

Run: SRR6824440
Summary

Run ID: SRR6824440

Sample name:

Date: 04-04-2023 16:37:04

Number of reads: 10614612

Percentage reads mapped: 89.75

Strain: lineage4.5;lineage4.4.2

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
lineage4.5 Euro-American H;T RD122 0.17
lineage4.4 Euro-American S;T None 0.81
lineage4.4.2 Euro-American T1;T2 None 0.81
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
gyrB 5302 p.Glu21Asp missense_variant 0.76
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7892 c.591G>A synonymous_variant 0.17
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 0.15
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417236 p.Val38Met missense_variant 0.78
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.11
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.17
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.21
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.21
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.21
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.21
rrs 1472669 n.824_825insTGGA non_coding_transcript_exon_variant 0.21
rrs 1472682 n.839_843delGGGAT non_coding_transcript_exon_variant 0.16
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.2
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.2
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.2
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.21
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.21
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.21
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.2
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.19
rrs 1472954 n.1109T>G non_coding_transcript_exon_variant 0.18
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.18
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.17
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.18
rrs 1472969 n.1125_1126delCG non_coding_transcript_exon_variant 0.18
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.17
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.17
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.17
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.17
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.17
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.17
rrs 1472992 n.1147A>C non_coding_transcript_exon_variant 0.17
rrs 1473002 n.1157G>C non_coding_transcript_exon_variant 0.17
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.18
rrs 1473008 n.1163C>G non_coding_transcript_exon_variant 0.17
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.16
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.15
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.24
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.26
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.27
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.23
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.23
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.23
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.23
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.23
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.23
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.22
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.23
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.23
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.24
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.3
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.38
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.39
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.4
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.38
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.37
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.33
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.31
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.3
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.31
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.29
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.24
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154177 c.1935G>A synonymous_variant 0.75
PPE35 2170568 p.Ile15Met missense_variant 0.21
Rv1979c 2222165 p.Gly334Arg missense_variant 0.78
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3066099 p.Met31Ile missense_variant 0.82
ald 3086788 c.-32T>C upstream_gene_variant 0.81
Rv3083 3448727 p.Leu75Arg missense_variant 0.77
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 0.12
clpC1 4038318 p.Pro796Leu missense_variant 0.17
clpC1 4039058 p.Phe549Leu missense_variant 0.74
clpC1 4040498 c.207G>A synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243991 c.759T>G synonymous_variant 0.74
embA 4245946 p.Ile905Thr missense_variant 0.75
embB 4246508 c.-6G>A upstream_gene_variant 0.86
aftB 4268928 c.-92C>T upstream_gene_variant 0.8
aftB 4269375 c.-539G>A upstream_gene_variant 0.84
whiB6 4338595 c.-75delG upstream_gene_variant 1.0