Run ID: SRR1573711
Sample name:
Date: 03-04-2023 14:47:21
Number of reads: 1312125
Percentage reads mapped: 99.21
Strain: lineage4.4.2;lineage4.4.1.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.4 | Euro-American | S;T | None | 1.0 |
lineage4.4.1 | Euro-American (S-type) | S;T | None | 0.31 |
lineage4.4.2 | Euro-American | T1;T2 | None | 0.72 |
lineage4.4.1.1 | Euro-American | S;Orphans | None | 0.3 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
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 | 759615 | c.-192A>C | upstream_gene_variant | 0.18 |
rpoB | 759620 | c.-187A>C | upstream_gene_variant | 0.27 |
rpoB | 762669 | p.Asp955Asn | missense_variant | 0.35 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
atpE | 1460907 | c.-138T>C | upstream_gene_variant | 0.85 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102990 | p.Val18Ala | missense_variant | 0.26 |
PPE35 | 2169840 | p.Gly258Asp | missense_variant | 0.2 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
ahpC | 2726341 | p.Val50Gly | missense_variant | 0.14 |
Rv2752c | 3066099 | p.Met31Ile | missense_variant | 0.74 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448348 | c.-156G>A | upstream_gene_variant | 0.67 |
Rv3083 | 3448608 | c.105G>A | synonymous_variant | 0.35 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
Rv3236c | 3612665 | p.Val151Ala | missense_variant | 0.29 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embB | 4246508 | c.-6G>A | upstream_gene_variant | 0.66 |
aftB | 4267643 | p.Asp398Glu | missense_variant | 0.33 |
aftB | 4268928 | c.-92C>T | upstream_gene_variant | 0.56 |
aftB | 4269375 | c.-539G>A | upstream_gene_variant | 0.64 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |