TB-Profiler result

Run: ERR2512961
Summary

Run ID: ERR2512961

Sample name:

Date: 31-03-2023 19:22:06

Number of reads: 1579914

Percentage reads mapped: 99.33

Strain: lineage4.1.1

Drug-resistance: Sensitive

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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
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
mshA 575252 c.-96C>T upstream_gene_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 1472122 n.277G>T non_coding_transcript_exon_variant 0.23
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.23
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.23
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.23
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.23
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.31
rrs 1472996 n.1151T>C non_coding_transcript_exon_variant 0.33
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.33
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.22
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.3
rrs 1473258 n.1413T>C non_coding_transcript_exon_variant 0.17
rrs 1473263 n.1418A>G non_coding_transcript_exon_variant 0.17
rrs 1473266 n.1421A>G non_coding_transcript_exon_variant 0.18
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.25
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.25
rrs 1473284 n.1439A>T non_coding_transcript_exon_variant 0.25
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.29
rrs 1473310 n.1465T>C non_coding_transcript_exon_variant 0.29
rrs 1473314 n.1469A>G non_coding_transcript_exon_variant 0.25
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.25
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.25
rrs 1473319 n.1474C>T non_coding_transcript_exon_variant 0.25
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.29
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.29
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.5
rrl 1476147 n.2490G>C non_coding_transcript_exon_variant 0.12
rrl 1476523 n.2867delC non_coding_transcript_exon_variant 0.25
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.25
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.25
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.25
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3074648 c.-177T>G upstream_gene_variant 0.36
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
whiB6 4338595 c.-75delG upstream_gene_variant 1.0