TB-Profiler result

Run: SRR6207283
Summary

Run ID: SRR6207283

Sample name:

Date: 02-08-2023 15:09:45

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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
gyrB 5863 c.624G>T synonymous_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491532 c.750G>C synonymous_variant 0.29
mshA 575397 p.Arg17His missense_variant 0.18
mshA 575751 p.Gly135Glu missense_variant 0.11
rpoB 759780 c.-27T>C upstream_gene_variant 0.17
rpoB 761165 c.1359G>T synonymous_variant 0.13
rpoC 762491 c.-879T>C upstream_gene_variant 0.1
rpoC 763660 c.291T>C synonymous_variant 0.12
rpoC 763675 c.306C>G synonymous_variant 0.12
rpoC 763699 c.330G>C synonymous_variant 0.14
rpoC 763702 c.333C>G synonymous_variant 0.14
rpoC 763703 c.334_336delTCGinsAGC synonymous_variant 0.14
rpoC 763714 c.345G>C synonymous_variant 0.14
rpoC 763717 c.348T>C synonymous_variant 0.13
rpoC 763723 c.354G>C synonymous_variant 0.12
rpoC 763744 c.375G>C synonymous_variant 0.12
rpoC 763751 p.Ile128Val missense_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776020 p.Leu821Val missense_variant 0.11
mmpL5 777621 p.Glu287Gly missense_variant 0.18
mmpL5 777678 p.Val268Gly missense_variant 0.14
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
atpE 1460855 c.-190_-189insC upstream_gene_variant 0.33
atpE 1461040 c.-4delG upstream_gene_variant 0.13
atpE 1461063 p.Ala7Thr missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.11
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.11
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.11
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.17
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.17
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.19
rrs 1472425 n.580T>C non_coding_transcript_exon_variant 0.14
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.15
rrs 1472437 n.592T>G non_coding_transcript_exon_variant 0.16
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 0.15
rrs 1472446 n.601T>G non_coding_transcript_exon_variant 0.14
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 0.14
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.14
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.14
rrs 1472460 n.615T>C non_coding_transcript_exon_variant 0.14
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.14
rrs 1472462 n.617T>C non_coding_transcript_exon_variant 0.14
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.14
rrs 1472466 n.621C>T non_coding_transcript_exon_variant 0.14
rrs 1472467 n.622G>C non_coding_transcript_exon_variant 0.14
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.14
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.14
rrs 1472486 n.641A>G non_coding_transcript_exon_variant 0.12
rrs 1472494 n.649A>T non_coding_transcript_exon_variant 0.12
rrs 1472496 n.651T>G non_coding_transcript_exon_variant 0.12
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.12
rrs 1472507 n.662C>T non_coding_transcript_exon_variant 0.11
rrs 1472508 n.663T>C non_coding_transcript_exon_variant 0.11
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.12
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.14
rrs 1472583 n.738T>A non_coding_transcript_exon_variant 0.14
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.14
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.14
rrs 1472971 n.1126G>A non_coding_transcript_exon_variant 0.11
rrl 1474688 n.1031G>C non_coding_transcript_exon_variant 0.12
rrl 1474690 n.1033C>T non_coding_transcript_exon_variant 0.12
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.1
rrl 1474736 n.1079C>T non_coding_transcript_exon_variant 0.1
rrl 1475883 n.2226A>G non_coding_transcript_exon_variant 0.16
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.14
rrl 1475902 n.2245T>C non_coding_transcript_exon_variant 0.16
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.15
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.13
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.13
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.14
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.14
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.14
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.14
rrl 1475982 n.2325G>A non_coding_transcript_exon_variant 0.13
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.12
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.12
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.12
rrl 1476056 n.2399G>A non_coding_transcript_exon_variant 1.0
fabG1 1673346 c.-94C>G upstream_gene_variant 0.12
fabG1 1673349 c.-91G>C upstream_gene_variant 0.13
fabG1 1673357 c.-83G>A upstream_gene_variant 0.15
fabG1 1673359 c.-81T>C upstream_gene_variant 0.14
fabG1 1673361 c.-79C>G upstream_gene_variant 0.13
fabG1 1673380 c.-60C>G upstream_gene_variant 0.2
rpsA 1833706 c.165C>T synonymous_variant 0.12
rpsA 1834765 c.1224A>G synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155160 p.Glu318Lys missense_variant 0.17
katG 2155477 p.Gly212Asp missense_variant 0.13
Rv1979c 2223051 p.Glu38Asp missense_variant 1.0
Rv1979c 2223284 c.-120C>A upstream_gene_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290094 c.-853A>G upstream_gene_variant 0.22
kasA 2517947 c.-168C>A upstream_gene_variant 0.11
kasA 2518919 p.Gly269Ser missense_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.27
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475358 p.Leu451Ser missense_variant 0.33
alr 3841124 c.297G>A synonymous_variant 0.2
rpoA 3878218 p.Leu97Pro missense_variant 0.18
rpoA 3878430 c.78G>T synonymous_variant 0.22
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4040241 p.Thr155Ile missense_variant 0.11
clpC1 4040249 p.Glu152Gly missense_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244729 c.1497C>T synonymous_variant 1.0
embA 4245245 c.2013C>T synonymous_variant 0.2
embB 4246825 p.Lys104Asn missense_variant 0.33
aftB 4267445 c.1392G>T synonymous_variant 0.11
aftB 4267933 p.Ala302Pro missense_variant 0.2
aftB 4269108 c.-272C>A upstream_gene_variant 0.12
ethA 4326142 c.1332C>T synonymous_variant 0.17
ethA 4326504 p.Gly324Arg missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0
gid 4408408 c.-206G>T upstream_gene_variant 0.17