TB-Profiler result

Run: SRR6045465
Summary

Run ID: SRR6045465

Sample name:

Date: 04-04-2023 11:59:48

Number of reads: 1257900

Percentage reads mapped: 96.7

Strain: lineage4.4

Drug-resistance: Other

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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
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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.33 streptomycin
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 9304 p.Gly668Asp missense_variant 1.0
ccsA 620748 c.858T>G synonymous_variant 0.29
rpoC 762914 c.-456C>T upstream_gene_variant 1.0
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 1472507 n.662C>G non_coding_transcript_exon_variant 0.36
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.33
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.33
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.44
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.44
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.53
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.53
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.62
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.62
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.55
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.46
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.73
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.73
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.73
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.73
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.56
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.56
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.67
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.6
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.6
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.38
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.38
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.38
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.44
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.3
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.44
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.5
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.36
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.33
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.33
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.29
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.29
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.29
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.29
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.25
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.25
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.25
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.25
rrs 1473291 n.1446G>A non_coding_transcript_exon_variant 0.25
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.2
rrs 1473316 n.1471C>A non_coding_transcript_exon_variant 0.25
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.18
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.18
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.18
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.18
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.18
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.13
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.22
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.24
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.3
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.3
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.26
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.26
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.2
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.31
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.27
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.23
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.22
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2167851 p.Asn921Ser missense_variant 1.0
PPE35 2169265 p.Ser450Arg missense_variant 1.0
PPE35 2169757 p.Asn286Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.27
folC 2746745 p.Val285Gly missense_variant 0.27
ribD 2987278 p.Ala147Val missense_variant 1.0
Rv2752c 3065715 c.477T>C synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
ubiA 4270032 c.-199C>T upstream_gene_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407716 p.Lys163Glu missense_variant 1.0