TB-Profiler result

Run: SRR7535073
Summary

Run ID: SRR7535073

Sample name:

Date: 04-04-2023 19:44:07

Number of reads: 4748835

Percentage reads mapped: 29.22

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 1.0
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
rpoC 762894 c.-476C>T upstream_gene_variant 0.14
rpoB 762911 p.Ile1035Met missense_variant 0.26
rpoC 762923 c.-447C>G upstream_gene_variant 0.23
rpoC 762929 c.-441G>T upstream_gene_variant 0.22
rpoC 762932 c.-438G>T upstream_gene_variant 0.22
rpoB 762939 p.Met1045Leu missense_variant 0.21
rpoB 762942 p.Ile1046Val missense_variant 0.2
rpoC 762947 c.-423C>G upstream_gene_variant 0.2
rpoC 762962 c.-408C>T upstream_gene_variant 0.2
rpoC 762989 c.-381G>T upstream_gene_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 1472172 n.327T>C non_coding_transcript_exon_variant 0.32
rrs 1472210 n.365A>T non_coding_transcript_exon_variant 0.41
rrs 1472214 n.369C>G non_coding_transcript_exon_variant 0.41
rrs 1472235 n.390G>C non_coding_transcript_exon_variant 0.42
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.42
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.42
rrs 1472251 n.406G>C non_coding_transcript_exon_variant 0.36
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.36
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.35
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.32
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.31
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.32
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.31
rrs 1472785 n.940G>T non_coding_transcript_exon_variant 0.3
rrs 1472786 n.941C>G non_coding_transcript_exon_variant 0.3
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.3
rrs 1472814 n.969G>A non_coding_transcript_exon_variant 0.28
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.12
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.14
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.24
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.24
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.27
rrs 1473192 n.1347A>G 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 0.26
rrs 1473204 n.1359C>T non_coding_transcript_exon_variant 0.26
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.26
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.25
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.29
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.29
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.41
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.41
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.41
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.43
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.45
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.44
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.44
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.45
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.44
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.56
rrl 1476411 n.2754G>T non_coding_transcript_exon_variant 0.56
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.55
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.56
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.41
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.4
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.37
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.36
rrl 1476463 n.2806C>A non_coding_transcript_exon_variant 0.34
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.35
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.35
rrl 1476483 n.2826G>A non_coding_transcript_exon_variant 0.29
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2169320 p.Leu431Phe missense_variant 0.18
Rv1979c 2222359 p.Leu269Pro missense_variant 0.99
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073806 c.666C>G synonymous_variant 0.14
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
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