TB-Profiler result

Run: ERR3994110
Summary

Run ID: ERR3994110

Sample name:

Date: 01-04-2023 03:42:37

Number of reads: 457394

Percentage reads mapped: 99.56

Strain: lineage4.1.1

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
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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
gyrB 7157 p.Asp640Tyr missense_variant 0.13
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7438 p.Asp46Gly missense_variant 0.33
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7683 c.384delG frameshift_variant 0.29
gyrA 8745 p.Glu482Lys missense_variant 0.1
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491128 p.Thr116Ser missense_variant 0.17
fgd1 491751 c.969C>T synonymous_variant 0.11
mshA 576188 c.843_844delCA frameshift_variant 0.11
mshA 576768 p.Pro474Leu missense_variant 0.12
mshA 576783 p.Gly479Val missense_variant 0.12
rpoB 760354 c.549delG frameshift_variant 0.1
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765414 c.2046_2048delGTT disruptive_inframe_deletion 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 778149 p.Gln111Arg missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303597 p.Phe223Ile missense_variant 0.1
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1473005 n.1160C>A non_coding_transcript_exon_variant 0.2
rrl 1475265 n.1608G>A non_coding_transcript_exon_variant 1.0
rrl 1475994 n.2337G>T non_coding_transcript_exon_variant 0.13
rpsA 1834893 p.Ala451Gly missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223307 c.-143T>C upstream_gene_variant 0.12
pncA 2288950 p.Ala98Thr missense_variant 0.15
pncA 2290122 c.-882dupG upstream_gene_variant 0.14
kasA 2518294 p.Ile60Met missense_variant 0.2
kasA 2518709 p.Glu199Gln missense_variant 0.13
kasA 2518817 p.Asp235Asn missense_variant 0.12
eis 2715549 c.-217G>A upstream_gene_variant 0.22
ahpC 2726081 c.-112C>T upstream_gene_variant 0.11
ahpC 2726210 c.18T>C synonymous_variant 1.0
folC 2746222 c.1377C>T synonymous_variant 0.25
folC 2746866 c.731_732delTG frameshift_variant 0.12
Rv2752c 3067177 c.-986G>T upstream_gene_variant 0.18
thyA 3073848 c.624C>A synonymous_variant 0.1
thyA 3074561 c.-90T>C upstream_gene_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449723 p.Cys407Tyr missense_variant 0.12
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475286 p.Asp427Gly missense_variant 0.1
Rv3236c 3612720 c.395_396dupTG frameshift_variant 0.25
fbiA 3641398 p.Asp286Asn missense_variant 0.25
fbiA 3641447 p.Thr302Met missense_variant 1.0
fbiB 3642170 c.636G>T synonymous_variant 0.2
fbiB 3642273 p.Glu247Lys missense_variant 0.29
rpoA 3877553 p.Glu319Lys missense_variant 1.0
embC 4240260 p.Val133Ala missense_variant 0.14
embC 4240897 c.1035C>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243245 p.Gly5Cys missense_variant 0.17
embA 4244593 p.Ala454Glu missense_variant 0.17
embA 4245858 p.Ala876Pro missense_variant 0.14
embB 4247082 p.Thr190Ile missense_variant 0.13
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4266995 c.1842G>A synonymous_variant 0.11
aftB 4267644 p.Asp398Gly missense_variant 0.12
aftB 4268848 c.-13delT upstream_gene_variant 0.12
ubiA 4269397 p.Ala146Glu missense_variant 0.18
ethA 4327452 p.Val8Ile missense_variant 0.17
ethA 4328327 c.-855delC upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408456 c.-254C>G upstream_gene_variant 1.0