TB-Profiler result

Run: SRR7131094
Summary

Run ID: SRR7131094

Sample name:

Date: 04-04-2023 18:45:09

Number of reads: 2478334

Percentage reads mapped: 99.99

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 1472733 n.888G>A non_coding_transcript_exon_variant 0.15 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 8040 p.Gly247Ser missense_variant 0.97
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776724 p.Tyr586Ser 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 1472106 n.261G>A non_coding_transcript_exon_variant 0.11
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.35
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.12
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.28
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.38
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.44
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.11
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.41
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.37
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.13
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.14
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.15
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.15
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.16
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.17
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.27
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.25
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.23
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.2
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.21
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.13
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.1
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.14
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.25
rrl 1474634 n.977T>C non_coding_transcript_exon_variant 0.25
rrl 1474636 n.979A>C non_coding_transcript_exon_variant 0.25
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.25
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.25
rrl 1474640 n.983C>T non_coding_transcript_exon_variant 0.25
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 1.0
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 1.0
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 1.0
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.4
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.2
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.2
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.2
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.18
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.18
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.2
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.2
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.33
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.43
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.43
rrl 1476204 n.2547C>T non_coding_transcript_exon_variant 0.25
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.25
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.29
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.25
rrl 1476354 n.2699_2700delCT non_coding_transcript_exon_variant 0.21
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.1
rrl 1476359 n.2703_2704insGC non_coding_transcript_exon_variant 0.24
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.35
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.12
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.27
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.45
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.25
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.19
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.43
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.29
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.11
rrl 1476443 n.2786G>T non_coding_transcript_exon_variant 0.12
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.11
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.11
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.14
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.24
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.21
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170048 p.Leu189Val missense_variant 0.17
PPE35 2170053 p.Thr187Ser missense_variant 0.16
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518919 p.Gly269Ser 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 0.97
clpC1 4038287 c.2418C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 1.0