TB-Profiler result

Run: SRR6855910
Summary

Run ID: SRR6855910

Sample name:

Date: 04-04-2023 17:49:48

Number of reads: 525069

Percentage reads mapped: 98.81

Strain: lineage4.3.3

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.3 Euro-American (LAM) LAM;T RD115 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 6375 p.Glu379Val missense_variant 0.12
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8040 p.Gly247Ser missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760943 c.1137C>A synonymous_variant 0.13
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777512 p.Cys323* stop_gained 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801179 p.Ala124Asp missense_variant 0.25
fbiC 1303105 p.Cys59Ser missense_variant 0.11
Rv1258c 1406488 p.Val285Ile missense_variant 0.12
embR 1416800 p.Ala183Val missense_variant 0.14
atpE 1461064 p.Ala7Val missense_variant 0.25
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474287 n.630T>C non_coding_transcript_exon_variant 0.17
rrl 1474480 n.823T>A non_coding_transcript_exon_variant 0.12
rrl 1475205 n.1548G>C non_coding_transcript_exon_variant 0.17
rrl 1476056 n.2399G>A non_coding_transcript_exon_variant 1.0
rrl 1476747 n.3090C>T non_coding_transcript_exon_variant 0.11
rpsA 1833992 p.Ser151Pro missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918702 p.Gly255* stop_gained 0.15
ndh 2102603 p.Leu147* stop_gained 0.15
ndh 2102784 p.Gly87Ser missense_variant 0.17
ndh 2102891 p.Phe51Ser missense_variant 0.15
katG 2154056 p.Lys686* stop_gained 0.11
katG 2154550 p.Leu521Pro missense_variant 0.14
PPE35 2167826 c.2787C>T synonymous_variant 0.13
PPE35 2167853 p.Phe920Leu missense_variant 1.0
PPE35 2169306 p.Asp436Val missense_variant 0.12
PPE35 2170375 p.Ala80Thr missense_variant 0.2
PPE35 2170433 c.180G>C synonymous_variant 0.15
Rv1979c 2222996 p.Phe57Leu missense_variant 0.15
Rv1979c 2223051 p.Glu38Asp missense_variant 1.0
Rv1979c 2223214 c.-50A>G upstream_gene_variant 0.18
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290009 c.-768A>G upstream_gene_variant 0.2
kasA 2518919 p.Gly269Ser missense_variant 1.0
eis 2714200 p.Lys378Arg missense_variant 0.1
folC 2746601 p.Val333Gly missense_variant 0.17
ribD 2987423 c.585G>A synonymous_variant 0.1
ribD 2987508 p.Ala224Thr missense_variant 0.11
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0
thyX 3067744 p.Gly68Arg missense_variant 0.13
thyA 3073868 p.Thr202Ala missense_variant 1.0
thyA 3074468 p.Thr2Ala missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568762 c.-83G>T upstream_gene_variant 0.1
fbiB 3641757 c.224delG frameshift_variant 0.11
alr 3840781 p.Arg214Trp missense_variant 0.11
rpoA 3878137 p.His124Leu missense_variant 0.17
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embC 4239683 c.-180G>A upstream_gene_variant 0.17
embC 4240212 p.Val117Gly missense_variant 0.11
embC 4240914 p.Met351Lys missense_variant 0.12
embC 4240926 p.Cys355Ser missense_variant 0.12
embC 4240965 p.Gly368Val missense_variant 0.15
embC 4241878 c.2017_2018delCT frameshift_variant 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244093 c.861C>T synonymous_variant 0.11
embA 4245204 p.Gly658* stop_gained 0.12
embA 4245612 p.Asn794Asp missense_variant 0.15
embB 4245815 c.-699C>A upstream_gene_variant 0.12
embB 4246917 p.Val135Gly missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0