TB-Profiler result

Run: SRR2101661
Summary

Run ID: SRR2101661

Sample name:

Date: 03-04-2023 23:50:43

Number of reads: 1406311

Percentage reads mapped: 93.35

Strain: lineage4.1

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
lineage4.1 Euro-American T;X;H None 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
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 7585 p.Ser95Thr missense_variant 1.0
gyrA 8694 c.1393C>T synonymous_variant 1.0
gyrA 8705 c.1404C>T synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 759620 c.-187A>C upstream_gene_variant 0.31
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 1472598 n.753A>C non_coding_transcript_exon_variant 0.12
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.12
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.17
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.2
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.23
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.22
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.23
rrs 1473080 n.1235C>G non_coding_transcript_exon_variant 0.22
rrs 1473082 n.1237G>A non_coding_transcript_exon_variant 0.22
rrs 1473084 n.1239T>A non_coding_transcript_exon_variant 0.2
rrs 1473094 n.1249T>A non_coding_transcript_exon_variant 0.18
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.18
rrs 1473109 n.1264T>C non_coding_transcript_exon_variant 0.16
rrs 1473115 n.1270G>C non_coding_transcript_exon_variant 0.16
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.16
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.16
rrs 1473123 n.1278A>C non_coding_transcript_exon_variant 0.16
rrs 1473127 n.1282G>T non_coding_transcript_exon_variant 0.16
rrs 1473129 n.1284C>T non_coding_transcript_exon_variant 0.17
rrs 1473131 n.1286G>T non_coding_transcript_exon_variant 0.17
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.16
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.16
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.12
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.16
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.24
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.25
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.26
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.25
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.25
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.25
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.24
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.24
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.24
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.23
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 0.23
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.3
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.4
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.42
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.42
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.43
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.42
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.44
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.35
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.35
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.36
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.38
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.35
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.29
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.25
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.25
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.24
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.24
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.24
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.23
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.23
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.23
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.23
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.24
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.24
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.25
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.26
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.26
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.22
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.11
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.11
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.1
rpsA 1834348 c.807T>C synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3074489 c.-18G>A upstream_gene_variant 0.97
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475346 p.Leu447Arg missense_variant 1.0
Rv3236c 3612515 p.Arg201His missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4244890 p.Ile553Thr missense_variant 0.11
embB 4249408 c.2895G>A synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408031 p.Leu58Phe missense_variant 1.0