TB-Profiler result

Run: SRR1173704
Summary

Run ID: SRR1173704

Sample name:

Date: 03-04-2023 03:30:03

Number of reads: 1270110

Percentage reads mapped: 68.82

Strain: lineage4.6.1.1

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
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.1 Euro-American (Uganda) T2 RD724 0.99
lineage4.6.1.1 Euro-American T2-Uganda RD724 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 7539 p.Thr80Ala missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 575938 c.591G>A synonymous_variant 0.2
mshA 576256 c.909C>A synonymous_variant 0.13
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.22
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.23
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.27
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.25
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.26
rrs 1472251 n.406G>T non_coding_transcript_exon_variant 0.13
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.12
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.12
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.12
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.12
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.3
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.3
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.29
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.26
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.12
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.17
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.26
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.26
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.27
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.28
rrs 1473198 n.1354delC non_coding_transcript_exon_variant 0.26
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.25
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.26
rrl 1475526 n.1869C>A non_coding_transcript_exon_variant 0.13
rrl 1475538 n.1881T>C non_coding_transcript_exon_variant 0.12
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.12
rrl 1475540 n.1883C>T non_coding_transcript_exon_variant 0.12
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.12
rrl 1475550 n.1893A>C non_coding_transcript_exon_variant 0.11
rrl 1475551 n.1894T>G non_coding_transcript_exon_variant 0.11
rrl 1475555 n.1898T>G non_coding_transcript_exon_variant 0.11
rrl 1475574 n.1917C>G non_coding_transcript_exon_variant 0.12
rrl 1475575 n.1918C>T non_coding_transcript_exon_variant 0.12
rrl 1475576 n.1919C>G non_coding_transcript_exon_variant 0.12
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.22
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.24
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.24
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.24
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.24
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.25
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.25
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.25
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.25
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.25
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.34
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.34
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.41
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.42
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.35
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.35
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.35
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.36
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.34
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.33
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.18
fabG1 1673914 p.Gly159Arg missense_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv2752c 3064886 p.Ala436Ser missense_variant 0.13
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878567 c.-60C>G upstream_gene_variant 0.18
embA 4242643 c.-590C>T upstream_gene_variant 1.0
ethA 4328329 c.-856C>G upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407921 c.282A>G synonymous_variant 0.12