TB-Profiler result

Run: ERR4132444
Summary

Run ID: ERR4132444

Sample name:

Date: 01-04-2023 04:30:16

Number of reads: 658822

Percentage reads mapped: 99.44

Strain: lineage4.2.1.1

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
lineage4.2 Euro-American H;T;LAM None 0.99
lineage4.2.1 Euro-American (TUR) H3;H4 None 1.0
lineage4.2.1.1 Euro-American (TUR) H3;H4 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 9304 p.Gly668Asp missense_variant 1.0
mshA 575221 c.-127C>T upstream_gene_variant 0.14
mshA 575669 c.322C>T synonymous_variant 0.15
rpoB 763038 c.3234_3235delCC frameshift_variant 0.12
rpoC 765179 p.Gly604Arg missense_variant 0.12
rpoC 766350 p.Ala994Asp missense_variant 0.12
rpoC 766860 p.Arg1164Leu missense_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777224 c.1257C>T synonymous_variant 0.12
mmpL5 777451 p.Val344Leu missense_variant 1.0
mmpL5 777880 p.Asp201Tyr missense_variant 0.15
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303875 c.945G>A synonymous_variant 0.14
Rv1258c 1407185 p.Met52Ile missense_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833438 c.-104C>T upstream_gene_variant 0.13
rpsA 1834353 p.Arg271Leu missense_variant 0.14
rpsA 1834658 p.Phe373Leu missense_variant 0.17
tlyA 1917957 c.18C>T synonymous_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918059 c.120C>A synonymous_variant 0.25
ndh 2102362 p.Lys227Asn missense_variant 0.13
ndh 2102449 p.Lys198Asn missense_variant 0.13
ndh 2103023 p.Pro7Leu missense_variant 1.0
katG 2154598 p.Trp505Leu missense_variant 0.12
katG 2155758 c.354C>A synonymous_variant 0.13
PPE35 2169879 p.Phe245Cys missense_variant 0.96
PPE35 2170048 p.Leu189Val missense_variant 0.37
PPE35 2170053 p.Thr187Ser missense_variant 0.39
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518058 c.-57G>T upstream_gene_variant 0.18
eis 2714937 c.396G>T synonymous_variant 0.29
ahpC 2726338 p.Val49Gly missense_variant 0.33
ribD 2987520 p.Val228Met missense_variant 0.12
ald 3086742 c.-78A>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448571 p.Val23Ala missense_variant 0.15
Rv3083 3448899 c.396C>A synonymous_variant 0.12
Rv3083 3449207 p.Pro235Gln missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475267 p.Ala421Thr missense_variant 0.17
Rv3236c 3612183 p.Ala312Ser missense_variant 0.22
fbiB 3642063 p.Ala177Ser missense_variant 0.17
clpC1 4038428 c.2277G>A synonymous_variant 0.17
clpC1 4039467 p.Arg413Leu missense_variant 0.29
embC 4240655 p.Ala265Pro missense_variant 0.3
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244612 c.1380C>A synonymous_variant 0.13
embA 4245703 p.Ser824Leu missense_variant 0.13
ubiA 4269198 p.Ser212Arg missense_variant 0.12
ubiA 4269272 p.Val188Leu missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408213 c.-11C>T upstream_gene_variant 1.0