TB-Profiler result

Run: SRR6855692
Summary

Run ID: SRR6855692

Sample name:

Date: 04-04-2023 17:42:23

Number of reads: 383180

Percentage reads mapped: 99.76

Strain: lineage4.4.1.1

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 0.99
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 9138 p.Gln613Glu missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575413 p.Glu22Asp missense_variant 0.1
mshA 575426 p.Ser27Thr missense_variant 0.1
rpoC 766630 c.3261G>T synonymous_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775838 c.2643G>A synonymous_variant 1.0
mmpL5 776913 p.Leu523Arg missense_variant 0.11
mmpL5 776980 p.Ile501Val missense_variant 0.11
mmpL5 777093 p.Leu463Ser missense_variant 0.12
mmpL5 777238 p.Tyr415His missense_variant 0.11
mmpL5 777416 c.1065G>T synonymous_variant 1.0
mmpL5 777894 p.Gln196Arg missense_variant 0.11
mmpS5 778637 p.Leu90Pro missense_variant 0.13
mmpR5 779239 p.Ala84Pro missense_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304566 p.Phe546Leu missense_variant 0.12
fbiC 1304666 p.Leu579Pro missense_variant 0.14
fbiC 1304781 c.1851G>C synonymous_variant 0.14
fbiC 1305216 p.Ser762Arg missense_variant 0.12
Rv1258c 1407538 c.-198T>C upstream_gene_variant 0.25
atpE 1460907 c.-138T>C upstream_gene_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2154108 p.Trp668Cys missense_variant 0.14
PPE35 2169687 p.Ile309Thr missense_variant 0.18
PPE35 2169767 c.846A>G synonymous_variant 0.15
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2222194 p.Pro324Gln missense_variant 0.12
Rv1979c 2222202 c.963C>T synonymous_variant 0.11
Rv1979c 2222206 p.Ser320Leu missense_variant 0.12
Rv1979c 2222216 p.Val317Ile missense_variant 0.12
Rv1979c 2222598 c.567C>T synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715065 p.Thr90Ala missense_variant 0.14
ahpC 2725990 c.-203T>C upstream_gene_variant 0.13
folC 2746266 p.Ser445Pro missense_variant 0.15
folC 2746308 c.1289_1290dupTG frameshift_variant 0.17
ald 3086682 c.-138T>A upstream_gene_variant 0.11
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568779 c.-100T>C upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
Rv3236c 3613135 c.-19G>A upstream_gene_variant 0.11
fbiB 3641783 c.249G>T synonymous_variant 0.17
fbiB 3642047 c.513G>C synonymous_variant 0.18
alr 3840210 p.Glu404Val missense_variant 0.11
clpC1 4038586 p.Pro707Ser missense_variant 0.11
embC 4240877 p.Thr339Ser missense_variant 0.15
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244998 p.Ala589Val missense_variant 0.14
embB 4246544 p.Thr11Pro missense_variant 0.2
embB 4246548 p.Pro12Gln missense_variant 0.2
embB 4246555 c.42G>C synonymous_variant 0.17
embB 4246556 p.Ala15Pro missense_variant 0.17
embB 4246563 p.Leu17Trp missense_variant 0.17
embB 4246567 c.54G>T synonymous_variant 0.15
embB 4246680 p.Leu56Pro missense_variant 0.15
embB 4247025 p.Pro171Leu missense_variant 0.12
embB 4247751 p.Leu413Pro missense_variant 0.12
whiB6 4338444 c.78G>A synonymous_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0