TB-Profiler result

Run: ERR4821407
Summary

Run ID: ERR4821407

Sample name:

Date: 01-04-2023 17:14:15

Number of reads: 1643648

Percentage reads mapped: 96.67

Strain: lineage4.3.4.2

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
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 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 0.83 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 9304 p.Gly668Asp missense_variant 1.0
rpoB 760791 p.Glu329Lys missense_variant 0.1
rpoC 763929 c.563delG frameshift_variant 0.12
rpoC 764995 c.1626C>G synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
Rv1258c 1406680 p.Asn221Asp missense_variant 1.0
embR 1416989 c.358delA frameshift_variant 0.1
atpE 1461068 c.24C>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.14
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.18
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.2
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.2
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.29
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.29
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.27
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.5
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.5
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.5
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.5
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.5
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.5
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.5
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.67
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.67
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.67
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.67
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.71
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.71
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.62
rrs 1472786 n.941C>T non_coding_transcript_exon_variant 0.25
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.2
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.7
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.5
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.44
rrs 1472827 n.982G>T non_coding_transcript_exon_variant 0.25
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.38
rrs 1472951 n.1106T>C non_coding_transcript_exon_variant 0.14
rrs 1472953 n.1108G>A non_coding_transcript_exon_variant 0.17
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.33
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.2
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.4
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.33
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.4
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.4
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.4
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.33
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.5
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.67
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.75
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.6
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.63
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.58
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.58
rrs 1473194 n.1349A>G non_coding_transcript_exon_variant 0.11
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.22
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.22
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.29
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.29
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.5
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.5
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.5
rrl 1473500 n.-158C>A upstream_gene_variant 0.14
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.2
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.2
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.2
rrl 1476165 n.2508T>G non_coding_transcript_exon_variant 0.4
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.67
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.67
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.67
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.67
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.67
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.36
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.62
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.54
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.55
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.41
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_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
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
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