TB-Profiler result

Run: ERR8975534
Summary

Run ID: ERR8975534

Sample name:

Date: 02-04-2023 08:51:58

Number of reads: 382792

Percentage reads mapped: 17.48

Strain: lineage4.3.4.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 0.99
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.99
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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 6140 p.Val301Leu 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
mshA 576007 c.660A>G synonymous_variant 0.18
mshA 576159 p.Val271Ala missense_variant 0.2
ccsA 620779 p.Val297Ile missense_variant 0.14
rpoC 764401 c.1032C>T synonymous_variant 0.18
rpoC 764405 c.1036_1038delAGGinsCGC synonymous_variant 0.3
rpoC 764410 c.1041G>C synonymous_variant 0.2
rpoC 764428 c.1059G>C synonymous_variant 0.2
rpoC 764434 c.1065A>G synonymous_variant 0.2
rpoC 764435 c.1066A>C synonymous_variant 0.2
rpoC 764443 p.Ile358Met missense_variant 0.2
rpoC 764446 p.Asp359Glu missense_variant 0.2
rpoC 764450 p.Gly361Arg missense_variant 0.2
rpoC 764461 p.Glu364Asp missense_variant 0.22
rpoC 764468 p.Val367Ile missense_variant 0.22
rpoC 764471 p.Asn368Arg missense_variant 0.2
rpoC 764479 c.1110G>A synonymous_variant 0.3
rpoC 764485 c.1116G>C synonymous_variant 0.33
rpoC 764489 c.1120C>T synonymous_variant 0.33
rpoC 764498 p.Ser377Ala missense_variant 0.44
rpoC 764503 c.1134G>C synonymous_variant 0.4
rpoC 764509 c.1140G>A synonymous_variant 0.4
rpoC 764521 c.1152T>C synonymous_variant 0.4
rpoC 764536 c.1167G>C synonymous_variant 0.25
rpoC 764537 p.Pro390Val missense_variant 0.22
rpoC 764540 p.Val391Ile missense_variant 0.22
rpoC 764548 c.1179G>C synonymous_variant 0.2
rpoC 764549 p.Pro394Ala missense_variant 0.18
rpoC 764552 p.Gly395Asn missense_variant 0.17
rpoC 764557 p.Asn396Lys missense_variant 0.17
rpoC 764566 c.1197C>G synonymous_variant 0.2
rpoC 764575 c.1206T>C synonymous_variant 0.2
rpoC 764576 p.Ser403Ala missense_variant 0.2
rpoC 764581 c.1212T>C synonymous_variant 0.17
rpoC 764582 p.Leu405Met missense_variant 0.17
rpoC 764605 c.1236G>C synonymous_variant 0.38
rpoC 764611 c.1242G>T synonymous_variant 0.35
rpoC 764632 c.1263T>C synonymous_variant 0.31
rpoC 764644 c.1275G>C synonymous_variant 0.25
rpoC 764650 c.1281G>T synonymous_variant 0.25
rpoC 764668 c.1299C>T synonymous_variant 0.25
rpoC 764672 p.Gln435Glu missense_variant 0.18
rpoC 764677 c.1308C>G synonymous_variant 0.2
rpoC 764678 p.Lys437Arg missense_variant 0.2
rpoC 764686 c.1317C>T synonymous_variant 0.24
rpoC 764695 c.1326T>C synonymous_variant 0.25
rpoC 764701 c.1332C>G synonymous_variant 0.29
rpoC 764705 p.Leu446Lys missense_variant 0.29
rpoC 764716 c.1347G>C synonymous_variant 0.25
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1416237 p.Ile371Val missense_variant 0.11
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918298 p.Trp120Ser missense_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2725930 c.-263C>A upstream_gene_variant 0.18
folC 2746788 p.Ala271Thr missense_variant 1.0
pepQ 2859724 p.Asp232Val missense_variant 0.15
thyX 3067248 p.Thr233Ile 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
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
rpoA 3877572 c.936G>C synonymous_variant 0.2
rpoA 3877987 p.Val174Ala missense_variant 0.17
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038400 p.Gly769Arg missense_variant 0.11
clpC1 4039012 p.Ala565Ser missense_variant 0.17
clpC1 4040404 p.Asn101Asp missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4245760 p.Tyr843Cys missense_variant 0.11
aftB 4267701 p.Trp379Leu missense_variant 0.14
ethA 4328272 c.-799C>T upstream_gene_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0