TB-Profiler result

Run: ERR5979789
Summary

Run ID: ERR5979789

Sample name:

Date: 02-04-2023 01:23:31

Number of reads: 4075146

Percentage reads mapped: 97.09

Strain: lineage4.9

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
lineage4.9 Euro-American (H37Rv-like) T1 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 1472473 n.628G>C non_coding_transcript_exon_variant 1.0 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
mshA 576108 p.Ala254Gly missense_variant 0.15
mshA 576616 c.1269G>C synonymous_variant 0.2
mmpL5 777883 p.Gly200Arg missense_variant 0.18
mmpR5 779181 c.198delG frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.4
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 0.67
rrs 1472437 n.592T>G non_coding_transcript_exon_variant 0.67
rrs 1472438 n.593T>G non_coding_transcript_exon_variant 0.67
rrs 1472439 n.594C>A non_coding_transcript_exon_variant 0.67
rrs 1472446 n.601T>A non_coding_transcript_exon_variant 0.67
rrs 1472451 n.606C>G non_coding_transcript_exon_variant 0.67
rrs 1472456 n.611T>C non_coding_transcript_exon_variant 0.67
rrs 1472460 n.615T>C non_coding_transcript_exon_variant 0.67
rrs 1472461 n.616G>C non_coding_transcript_exon_variant 0.67
rrs 1472471 n.626G>T non_coding_transcript_exon_variant 1.0
rrs 1472472 n.627G>T non_coding_transcript_exon_variant 1.0
rrs 1472493 n.648T>G non_coding_transcript_exon_variant 0.5
rrs 1472494 n.649A>T non_coding_transcript_exon_variant 0.5
rrs 1472495 n.650C>A non_coding_transcript_exon_variant 0.5
rrs 1472507 n.662C>A non_coding_transcript_exon_variant 0.5
rrs 1472508 n.663T>C non_coding_transcript_exon_variant 0.5
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.29
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.4
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.4
rrs 1472936 n.1091C>T non_coding_transcript_exon_variant 0.36
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.36
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.36
rrs 1472958 n.1113A>T non_coding_transcript_exon_variant 0.36
rrs 1472959 n.1114T>A non_coding_transcript_exon_variant 0.36
rrs 1472963 n.1118G>A non_coding_transcript_exon_variant 0.36
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.38
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.36
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.33
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.33
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.31
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.31
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.33
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.38
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.38
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.38
rrs 1473044 n.1199C>G non_coding_transcript_exon_variant 0.3
rrs 1473051 n.1206T>C non_coding_transcript_exon_variant 0.27
rrs 1473053 n.1208T>G non_coding_transcript_exon_variant 0.27
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.33
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.22
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.18
rrl 1476197 n.2540T>C non_coding_transcript_exon_variant 0.17
rrl 1476261 n.2604A>G non_coding_transcript_exon_variant 0.18
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.25
rrl 1476356 n.2699C>A non_coding_transcript_exon_variant 0.2
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.2
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.2
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.21
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.27
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.23
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.21
rrl 1476383 n.2726T>G non_coding_transcript_exon_variant 0.23
rrl 1476384 n.2727G>T non_coding_transcript_exon_variant 0.21
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.2
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.27
rrl 1476455 n.2798C>A non_coding_transcript_exon_variant 0.15
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.13
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.13
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.13
fabG1 1673553 p.Asp38Glu missense_variant 0.19
PPE35 2170065 p.Ala183Gly missense_variant 0.2
kasA 2519071 p.Asp319Glu missense_variant 0.17
pepQ 2860159 p.Ala87Gly missense_variant 0.22
fbiD 3339734 p.Ala206Gly missense_variant 0.7
fbiD 3339746 p.Ala210Gly missense_variant 0.14
whiB7 3568425 c.255T>C synonymous_variant 0.29
rpoA 3878641 c.-134C>G upstream_gene_variant 0.42
embC 4240409 p.Pro183Ala missense_variant 0.25
embB 4246527 p.Ala5Gly missense_variant 0.24
embB 4248328 c.1815G>C synonymous_variant 0.19