TB-Profiler result

Run: SRR10272566
Summary

Run ID: SRR10272566

Sample name:

Date: 02-04-2023 16:36:58

Number of reads: 3668359

Percentage reads mapped: 81.22

Strain: lineage4.3.3

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
lineage4.3 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
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.12 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
gyrB 6408 p.Glu390Gly missense_variant 1.0
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
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 0.98
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.1
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.2
rrs 1472545 n.700A>G non_coding_transcript_exon_variant 0.23
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.18
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.33
rrs 1472583 n.738T>G non_coding_transcript_exon_variant 0.22
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.33
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.14
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.2
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.15
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.14
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.29
rrs 1472634 n.789T>C non_coding_transcript_exon_variant 0.15
rrs 1472635 n.790G>T non_coding_transcript_exon_variant 0.31
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.11
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.11
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.11
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.25
rrs 1472675 n.830T>C non_coding_transcript_exon_variant 0.11
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.11
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.21
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.21
rrs 1472687 n.842A>C non_coding_transcript_exon_variant 0.12
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.1
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.17
rrs 1472767 n.922G>C non_coding_transcript_exon_variant 0.13
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.12
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.14
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.12
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.12
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.13
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.12
rrs 1473120 n.1275C>T non_coding_transcript_exon_variant 0.13
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.13
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.12
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.12
rrl 1474041 n.384T>A non_coding_transcript_exon_variant 0.11
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.16
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.16
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.14
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.14
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.1
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.12
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.12
rrl 1474875 n.1218G>A non_coding_transcript_exon_variant 0.12
rrl 1474876 n.1219T>A non_coding_transcript_exon_variant 0.12
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.15
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.15
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.16
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.19
rrl 1476368 n.2711T>C non_coding_transcript_exon_variant 0.2
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.25
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.19
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.22
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.2
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.22
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.11
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.11
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.15
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.15
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.13
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.13
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.17
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.18
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser missense_variant 1.0
Rv2752c 3065824 p.Pro123Leu missense_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4269300 c.-464G>A upstream_gene_variant 1.0
whiB6 4338312 c.209_210insT frameshift_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0