TB-Profiler result

Run: SRR13837631
Summary

Run ID: SRR13837631

Sample name:

Date: 03-04-2023 09:14:45

Number of reads: 296607

Percentage reads mapped: 97.93

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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
fgd1 490804 p.Tyr8Asn missense_variant 1.0
fgd1 490893 c.111C>T synonymous_variant 1.0
mshA 575498 p.Ala51Pro missense_variant 1.0
mshA 575561 p.Met72Val missense_variant 0.17
mshA 575569 c.222A>G synonymous_variant 0.17
mshA 575571 p.Ser75Thr missense_variant 0.17
mshA 575575 c.228G>C synonymous_variant 0.17
mshA 575587 c.240C>A synonymous_variant 0.14
mshA 575590 c.243T>C synonymous_variant 0.14
mshA 575593 c.246G>C synonymous_variant 0.14
mshA 575623 c.276C>G synonymous_variant 0.17
mshA 575629 c.282A>C synonymous_variant 0.17
mshA 575635 c.288A>C synonymous_variant 0.2
mshA 575638 c.291T>C synonymous_variant 0.2
mshA 575641 c.294A>G synonymous_variant 0.2
mshA 575648 p.Val101Gln missense_variant 0.18
rpoC 763570 c.201G>C synonymous_variant 0.12
rpoC 763594 c.225C>T synonymous_variant 0.12
rpoC 763633 c.264T>C synonymous_variant 0.13
rpoC 763636 c.267T>C synonymous_variant 0.13
rpoC 763642 c.273G>C synonymous_variant 0.12
rpoC 763658 c.289_291delCTTinsTTG synonymous_variant 0.12
rpoC 763663 c.294C>A synonymous_variant 0.88
rpoC 763723 c.354G>C synonymous_variant 0.15
rpoC 763955 p.Lys196Gln missense_variant 1.0
rpoC 765682 p.Asn771Lys missense_variant 1.0
rpoC 765883 c.2514C>G synonymous_variant 0.18
rpoC 765886 c.2517C>G synonymous_variant 0.18
rpoC 765892 c.2523T>C synonymous_variant 0.2
rpoC 765928 c.2559C>G synonymous_variant 0.25
rpoC 765967 c.2598C>T synonymous_variant 0.2
rpoC 765970 c.2601C>T synonymous_variant 0.2
rpoC 765985 c.2616C>T synonymous_variant 0.22
rpoC 765994 c.2625A>T synonymous_variant 0.2
rpoC 766009 c.2640G>C synonymous_variant 0.2
rpoC 766010 c.2641_2642delTCinsAG synonymous_variant 0.2
rpoC 766021 c.2652G>C synonymous_variant 0.18
rpoC 766043 p.Gln892Glu missense_variant 0.2
rpoC 766054 c.2685C>G synonymous_variant 0.2
rpoC 766069 c.2700G>A synonymous_variant 0.22
rpoC 766082 p.Ala905Gln missense_variant 0.2
rpoC 766096 c.2727G>C synonymous_variant 0.2
rpoC 766342 c.2973C>A synonymous_variant 1.0
rpsL 781579 p.Leu7Arg missense_variant 1.0
fbiC 1304628 c.1698G>C synonymous_variant 0.14
fbiC 1304634 c.1704C>G synonymous_variant 0.14
fbiC 1304640 c.1710A>C synonymous_variant 0.15
fbiC 1304646 c.1716T>C synonymous_variant 0.13
fbiC 1304658 c.1728C>G synonymous_variant 0.12
fbiC 1304672 p.Val581Ala missense_variant 0.12
fbiC 1304675 p.Gly582Glu missense_variant 0.12
fbiC 1304691 c.1761G>C synonymous_variant 0.12
fbiC 1304694 c.1764A>C synonymous_variant 0.12
fbiC 1304703 c.1773C>G synonymous_variant 0.12
fbiC 1304724 c.1794A>G synonymous_variant 0.12
fbiC 1304727 c.1797A>G synonymous_variant 0.12
fbiC 1304742 c.1812T>C synonymous_variant 0.12
fbiC 1304748 c.1818T>C synonymous_variant 0.12
embR 1416509 p.Arg280Pro missense_variant 1.0
rrl 1474164 n.507C>A non_coding_transcript_exon_variant 1.0
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.29
inhA 1674315 c.114C>G synonymous_variant 1.0
katG 2154959 c.1153C>A synonymous_variant 1.0
PPE35 2170236 c.376_377insG frameshift_variant 1.0
pncA 2290061 c.-820C>T upstream_gene_variant 1.0
folC 2747798 c.-200A>T upstream_gene_variant 1.0
pepQ 2860252 p.Thr56Ser missense_variant 1.0
Rv2752c 3065651 p.Arg181Gly missense_variant 1.0
Rv3083 3448855 p.Val118Ile missense_variant 1.0
rpoA 3877765 p.Ala248Gly missense_variant 1.0
ddn 3986847 c.4_5insA frameshift_variant 1.0
clpC1 4039145 c.1560G>C synonymous_variant 0.14
clpC1 4039169 p.Glu512Asp missense_variant 0.14
clpC1 4039172 c.1533A>G synonymous_variant 0.14
clpC1 4039178 c.1527G>C synonymous_variant 0.15
clpC1 4039183 c.1522T>C synonymous_variant 0.17
clpC1 4039187 c.1518G>C synonymous_variant 0.17
clpC1 4039190 c.1515C>G synonymous_variant 0.17
clpC1 4039208 c.1497C>G synonymous_variant 0.14
clpC1 4039268 c.1437C>G synonymous_variant 0.2
clpC1 4039274 c.1431G>C synonymous_variant 0.2
clpC1 4039286 c.1419T>C synonymous_variant 0.18
clpC1 4039289 c.1416T>C synonymous_variant 0.2
clpC1 4039298 c.1407T>C synonymous_variant 0.2
clpC1 4039319 c.1386T>C synonymous_variant 0.2
clpC1 4039322 c.1383T>C synonymous_variant 0.2
clpC1 4039328 c.1377A>G synonymous_variant 0.22
clpC1 4039334 c.1371G>C synonymous_variant 0.22
clpC1 4039337 p.Thr456Gln missense_variant 0.2
embB 4247059 c.546C>G synonymous_variant 1.0
embB 4247144 p.Ser211Pro missense_variant 1.0
ubiA 4269553 p.Ala94Gly missense_variant 1.0
ethA 4327107 p.His123Asn missense_variant 0.25
gid 4408259 c.-57G>C upstream_gene_variant 1.0