TB-Profiler result

Run: ERR4822043
Summary

Run ID: ERR4822043

Sample name:

Date: 01-04-2023 17:36:13

Number of reads: 1609917

Percentage reads mapped: 98.76

Strain: lineage4.1.1

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
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 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 0.62 streptomycin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.15 kanamycin, capreomycin, aminoglycosides, amikacin
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
rpoC 765150 p.Gly594Glu missense_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 1472513 n.668T>C non_coding_transcript_exon_variant 0.67
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.67
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.4
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.4
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.4
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.4
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.4
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.33
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.33
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.62
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.62
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.57
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.4
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.5
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.6
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.6
rrs 1472973 n.1128A>C non_coding_transcript_exon_variant 0.5
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.5
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.4
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.4
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.22
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.2
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.4
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.4
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.3
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.22
rrs 1473109 n.1264T>C non_coding_transcript_exon_variant 0.25
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.25
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.25
rrs 1473112 n.1267A>G non_coding_transcript_exon_variant 0.25
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.25
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.25
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.2
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.27
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.22
rrs 1473202 n.1357C>T non_coding_transcript_exon_variant 0.29
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.44
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.4
rrs 1473286 n.1441C>A non_coding_transcript_exon_variant 0.17
rrs 1473288 n.1443C>G non_coding_transcript_exon_variant 0.18
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.42
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.31
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.23
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 1.0
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 1.0
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 1.0
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 1.0
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 1.0
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 1.0
rrl 1474520 n.863A>C non_coding_transcript_exon_variant 1.0
rrl 1474525 n.868A>G non_coding_transcript_exon_variant 1.0
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 1.0
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 1.0
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 1.0
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 1.0
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 1.0
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 1.0
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 1.0
rrl 1474582 n.925T>C non_coding_transcript_exon_variant 1.0
rrl 1474615 n.958A>G non_coding_transcript_exon_variant 1.0
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 1.0
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 1.0
rrl 1475767 n.2110_2111insT non_coding_transcript_exon_variant 1.0
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 1.0
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 1.0
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 1.0
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 1.0
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 1.0
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 1.0
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 1.0
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 1.0
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 1.0
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 1.0
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 1.0
rrl 1476207 n.2550T>C non_coding_transcript_exon_variant 1.0
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 1.0
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102545 c.498G>A synonymous_variant 1.0
PPE35 2170066 p.Ala183Thr missense_variant 0.19
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
ahpC 2726210 c.18T>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
fbiA 3641447 p.Thr302Met missense_variant 1.0
rpoA 3877553 p.Glu319Lys missense_variant 1.0
embC 4240897 c.1035C>G synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 1.0
aftB 4268614 p.Gly75Arg missense_variant 0.11
whiB6 4338595 c.-75delG upstream_gene_variant 1.0