TB-Profiler result

Run: SRR6896606
Summary

Run ID: SRR6896606

Sample name:

Date: 04-04-2023 18:11:19

Number of reads: 636846

Percentage reads mapped: 99.73

Strain: lineage4.4.1.1.1

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
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans None 1.0
lineage4.4.1.1.1 Euro-American S;Orphans 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 576299 p.Glu318Gln missense_variant 0.11
ccsA 620268 c.378G>A synonymous_variant 0.11
ccsA 620270 p.Val127Ala missense_variant 0.11
ccsA 620272 p.Val128Arg missense_variant 0.1
ccsA 620276 p.Leu129Pro missense_variant 0.11
rpoC 764797 c.1428G>T synonymous_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406329 p.Thr338Ala missense_variant 1.0
Rv1258c 1406463 p.Thr293Asn missense_variant 0.14
atpE 1461137 c.93C>A synonymous_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473630 n.-28G>T upstream_gene_variant 0.22
rrl 1473713 n.56A>T non_coding_transcript_exon_variant 0.2
rrl 1474955 n.1298T>A non_coding_transcript_exon_variant 0.17
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.11
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.11
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.11
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.12
fabG1 1673230 c.-210T>C upstream_gene_variant 0.11
inhA 1674114 c.-88T>A upstream_gene_variant 0.11
inhA 1674610 p.Ile137Val missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
PPE35 2169491 c.1122T>A synonymous_variant 0.11
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
folC 2747690 c.-92G>T upstream_gene_variant 0.13
pepQ 2859905 p.Val172Met missense_variant 0.12
pepQ 2860198 p.Ala74Val missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087247 p.Gln143Arg missense_variant 0.12
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3449003 p.Gln167Arg missense_variant 0.1
Rv3083 3449062 p.Ala187Thr missense_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiB 3642084 p.Gly184Ser missense_variant 0.11
rpoA 3878228 p.Thr94Ala missense_variant 0.11
rpoA 3878567 c.-60C>G upstream_gene_variant 1.0
panD 4044354 c.-73A>G upstream_gene_variant 0.12
embC 4240733 c.873delC frameshift_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244768 p.Glu512Asp missense_variant 0.11
embA 4245057 p.Ala609Thr missense_variant 0.12
embB 4249516 c.3003G>A synonymous_variant 0.11
aftB 4267821 p.Leu339Ser missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0