Run ID: SRR2101398
Sample name:
Date: 03-04-2023 23:41:37
Number of reads: 519962
Percentage reads mapped: 97.72
Strain: lineage4.3.2.1
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.3 | Euro-American (LAM) | mainly-LAM | None | 0.99 |
lineage4.3.2 | Euro-American (LAM) | LAM3 | None | 0.98 |
lineage4.3.2.1 | Euro-American (LAM) | LAM3 | RD761 | 0.99 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5520 | p.Pro94Leu | missense_variant | 0.93 |
gyrA | 7222 | c.-80C>T | upstream_gene_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7975 | p.Gly225Asp | missense_variant | 0.11 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491706 | c.924G>T | synonymous_variant | 0.3 |
mshA | 575653 | c.306G>A | synonymous_variant | 0.15 |
mshA | 576471 | c.1125dupC | frameshift_variant | 0.15 |
rpoB | 759776 | c.-31T>G | upstream_gene_variant | 0.27 |
rpoB | 759785 | c.-22T>G | upstream_gene_variant | 0.18 |
rpoB | 760609 | p.Leu268Pro | missense_variant | 0.13 |
rpoB | 762684 | p.Ala960Thr | missense_variant | 0.11 |
rpoC | 763807 | c.438T>C | synonymous_variant | 0.11 |
rpoC | 764995 | c.1626C>G | synonymous_variant | 1.0 |
rpoC | 767201 | p.Ala1278Pro | missense_variant | 0.11 |
rpoC | 767218 | c.3849C>T | synonymous_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 777597 | p.Arg295Gln | missense_variant | 0.12 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801324 | c.516T>C | synonymous_variant | 0.1 |
fbiC | 1303943 | p.Val338Glu | missense_variant | 0.12 |
Rv1258c | 1406228 | c.1113C>T | synonymous_variant | 0.11 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1472337 | n.492C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1473766 | n.109G>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1475097 | n.1440G>T | non_coding_transcript_exon_variant | 0.14 |
rrl | 1475120 | n.1463G>A | non_coding_transcript_exon_variant | 0.15 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
katG | 2155224 | p.Met296Ile | missense_variant | 0.14 |
katG | 2155330 | p.Glu261Val | missense_variant | 0.12 |
Rv1979c | 2222224 | p.Gly314Asp | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2290107 | c.-866T>A | upstream_gene_variant | 1.0 |
kasA | 2519348 | p.Ala412Ser | missense_variant | 0.15 |
eis | 2715050 | p.Gly95Arg | missense_variant | 0.18 |
folC | 2746524 | p.Ala359Thr | missense_variant | 0.14 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 1.0 |
thyA | 3073930 | p.Tyr181Phe | missense_variant | 0.11 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
Rv3083 | 3448358 | c.-146G>T | upstream_gene_variant | 0.12 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
whiB7 | 3568774 | c.-95G>T | upstream_gene_variant | 0.14 |
Rv3236c | 3612391 | c.726G>T | synonymous_variant | 0.12 |
Rv3236c | 3612524 | c.592delG | frameshift_variant | 0.11 |
fbiB | 3641301 | c.-234C>A | upstream_gene_variant | 0.13 |
ddn | 3986693 | c.-151C>A | upstream_gene_variant | 0.12 |
ddn | 3986907 | c.66_67delAC | frameshift_variant | 0.12 |
clpC1 | 4038287 | c.2418C>T | synonymous_variant | 1.0 |
clpC1 | 4039279 | p.Val476Ile | missense_variant | 0.1 |
embC | 4240365 | p.Phe168Tyr | missense_variant | 0.14 |
embC | 4241343 | c.1484delG | frameshift_variant | 0.11 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embC | 4243031 | c.3173delG | frameshift_variant | 0.17 |
embC | 4243082 | c.3221_3228delATCTGAAC | frameshift_variant | 0.13 |
embC | 4243092 | p.Leu1077Arg | missense_variant | 0.11 |
embC | 4243095 | p.Gly1078Val | missense_variant | 0.11 |
embA | 4243099 | c.-134G>C | upstream_gene_variant | 0.12 |
embA | 4243102 | c.-131G>T | upstream_gene_variant | 0.12 |
embC | 4243103 | p.Thr1081Pro | missense_variant | 0.12 |
embC | 4243106 | p.Arg1082Ser | missense_variant | 0.12 |
embC | 4243107 | c.3245_3246insGTTCAGAT | frameshift_variant | 0.12 |
embA | 4243460 | c.228C>T | synonymous_variant | 0.12 |
embB | 4245782 | c.-732C>A | upstream_gene_variant | 0.12 |
embB | 4247000 | p.Gly163Trp | missense_variant | 0.15 |
embB | 4248798 | p.Gly762Val | missense_variant | 0.12 |
aftB | 4267815 | p.Ala341Val | missense_variant | 0.25 |
aftB | 4268250 | p.Ala196Val | missense_variant | 0.11 |
aftB | 4268361 | p.Ser159* | stop_gained | 0.14 |
aftB | 4268904 | c.-68C>A | upstream_gene_variant | 0.11 |
ubiA | 4269959 | c.-126C>A | upstream_gene_variant | 0.11 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408156 | p.Leu16Arg | missense_variant | 1.0 |
gid | 4408359 | c.-157G>T | upstream_gene_variant | 0.14 |