TB-Profiler result

Run: SRR4035876
Summary

Run ID: SRR4035876

Sample name:

Date: 04-04-2023 07:21:18

Number of reads: 503786

Percentage reads mapped: 99.66

Strain: lineage4.4.1.1.1

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
lineage4.4.1.1 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
gyrB 5163 c.-77A>T upstream_gene_variant 0.13
gyrB 5396 p.Ala53Thr missense_variant 0.15
gyrB 7227 p.Ile663Asn missense_variant 0.18
gyrB 7256 p.Leu673Val missense_variant 0.18
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8039 c.738T>C synonymous_variant 0.15
gyrA 8427 p.Arg376Cys missense_variant 0.33
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9473 c.2172G>A synonymous_variant 0.17
gyrA 9497 c.2196G>T synonymous_variant 0.18
mshA 575421 p.Thr25Ile missense_variant 0.4
mshA 575583 p.Leu79Pro missense_variant 0.29
mshA 575596 c.249C>T synonymous_variant 0.25
mshA 575874 p.Thr176Ile missense_variant 0.29
rpoB 760981 p.Arg392Leu missense_variant 0.29
rpoB 760989 p.Arg395Trp missense_variant 0.29
rpoB 761885 c.2079T>C synonymous_variant 0.33
rpoB 761964 p.Trp720Arg missense_variant 0.2
rpoC 762836 c.-534C>G upstream_gene_variant 0.29
rpoB 763282 p.Asn1159Ile missense_variant 0.25
rpoC 764430 p.Leu354Arg missense_variant 0.17
rpoC 764803 c.1434C>T synonymous_variant 0.18
rpoC 764809 c.1440C>G synonymous_variant 0.17
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776450 c.2031C>A synonymous_variant 0.2
mmpL5 776781 p.Leu567* stop_gained 0.22
mmpL5 777924 p.Val186Asp missense_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303638 p.Lys236Asn missense_variant 0.17
fbiC 1304543 p.Asp538Gly missense_variant 0.4
fbiC 1304636 p.Gln569Pro missense_variant 0.12
fbiC 1304705 p.His592Arg missense_variant 0.2
Rv1258c 1406801 c.540A>T synonymous_variant 0.22
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1476462 n.2805G>T non_coding_transcript_exon_variant 0.18
inhA 1674240 p.Ser13Arg missense_variant 0.18
inhA 1674624 c.423A>G synonymous_variant 0.17
rpsA 1834977 p.Gly479Asp missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102714 p.Thr110Ile missense_variant 0.2
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2154779 p.Val445Ile missense_variant 0.18
katG 2155511 p.Glu201Gln missense_variant 0.14
katG 2155917 c.195C>T synonymous_variant 0.25
katG 2155944 p.Asp56Glu missense_variant 0.2
katG 2156211 c.-100G>A upstream_gene_variant 0.22
PPE35 2169149 c.1464G>C synonymous_variant 0.18
PPE35 2169840 p.Gly258Asp missense_variant 1.0
PPE35 2170256 c.357G>A synonymous_variant 0.15
PPE35 2170312 p.Arg101Trp missense_variant 0.14
Rv1979c 2221921 p.Lys415Met missense_variant 0.2
Rv1979c 2221931 p.Phe412Leu missense_variant 0.22
Rv1979c 2222554 p.Pro204Gln missense_variant 0.2
Rv1979c 2222562 c.603C>T synonymous_variant 0.29
Rv1979c 2223071 p.Ile32Phe missense_variant 0.13
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288812 p.Glu144Lys missense_variant 0.17
pncA 2289141 p.Tyr34Cys missense_variant 0.13
kasA 2518587 p.Leu158His missense_variant 0.17
ahpC 2726489 p.Gln99His missense_variant 0.18
folC 2746187 p.Ser471Leu missense_variant 0.29
folC 2746197 p.Ile468Phe missense_variant 0.25
pepQ 2860521 c.-103C>T upstream_gene_variant 0.17
ribD 2987279 c.441G>T synonymous_variant 0.4
thyX 3067696 p.Gly84Arg missense_variant 0.22
thyX 3067709 c.237G>A synonymous_variant 0.2
thyA 3073996 p.Leu159Pro missense_variant 0.4
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448608 c.105G>A synonymous_variant 1.0
Rv3083 3449448 c.945G>T synonymous_variant 0.2
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474704 p.Ile233Asn missense_variant 0.22
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
fbiA 3641146 p.Ala202Thr missense_variant 0.18
clpC1 4038941 c.1761_1763delCCG disruptive_inframe_deletion 0.5
clpC1 4038958 p.Gly583Ser missense_variant 0.5
clpC1 4038975 p.Leu577His missense_variant 0.5
panD 4044002 p.Asp94His missense_variant 0.22
embC 4241441 p.Pro527Ala missense_variant 0.25
embC 4241453 p.Ile531Val missense_variant 0.22
embC 4242124 c.2262C>T synonymous_variant 0.4
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244478 p.Thr416Ser missense_variant 0.14
embA 4245903 p.Ser891Thr missense_variant 0.18
embA 4245916 p.Gln895Arg missense_variant 0.15
embB 4245923 c.-591C>G upstream_gene_variant 0.17
embB 4248050 p.Gly513Arg missense_variant 0.15
embB 4248386 p.Arg625Gly missense_variant 0.11
embB 4249453 c.2940G>A synonymous_variant 0.22
embB 4249697 p.Gly1062Cys missense_variant 0.33
aftB 4268233 p.Ile202Phe missense_variant 0.22
aftB 4268258 c.579C>T synonymous_variant 0.29
aftB 4269378 c.-542C>A upstream_gene_variant 0.22
ubiA 4269554 p.Ala94Thr missense_variant 0.13
aftB 4269717 c.-881G>C upstream_gene_variant 0.2
ubiA 4269756 p.Trp26* stop_gained 0.17
ethA 4328019 c.-546G>T upstream_gene_variant 0.14
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407952 p.Pro84Gln missense_variant 0.2