Run ID: ERR2229056
Sample name:
Date: 31-03-2023 16:33:38
Number of reads: 759705
Percentage reads mapped: 99.38
Strain: lineage4.8
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
lineage4.8 | Euro-American (mainly T) | T1;T2;T3;T5 | RD219 | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 9271 | p.Asp657Gly | missense_variant | 0.15 |
mshA | 576482 | p.Val379Leu | missense_variant | 0.2 |
rpoC | 766752 | p.Arg1128Leu | missense_variant | 0.12 |
rpoC | 767114 | p.Lys1249Glu | missense_variant | 0.22 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rpsL | 781910 | c.353dupG | frameshift_variant | 0.2 |
rplC | 801004 | c.196C>T | synonymous_variant | 0.13 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1304709 | c.1779C>G | synonymous_variant | 0.14 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474339 | n.682C>A | non_coding_transcript_exon_variant | 0.18 |
rrl | 1474663 | n.1006C>A | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474899 | n.1242T>C | non_coding_transcript_exon_variant | 0.15 |
rrl | 1474927 | n.1270T>A | non_coding_transcript_exon_variant | 0.17 |
inhA | 1674671 | p.Ala157Asp | missense_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2101781 | p.Phe421Tyr | missense_variant | 0.14 |
katG | 2154582 | c.1530C>T | synonymous_variant | 0.25 |
PPE35 | 2167965 | p.Ala883Gly | missense_variant | 0.19 |
PPE35 | 2167967 | c.2646A>C | synonymous_variant | 0.19 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.43 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.43 |
PPE35 | 2170189 | p.Glu142Gln | missense_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518867 | c.753G>A | synonymous_variant | 0.13 |
kasA | 2518879 | c.765A>G | synonymous_variant | 0.14 |
eis | 2715059 | p.Arg92Cys | missense_variant | 0.14 |
ahpC | 2725969 | c.-224C>G | upstream_gene_variant | 0.14 |
folC | 2746591 | c.1008C>T | synonymous_variant | 0.4 |
thyX | 3067418 | c.528C>A | synonymous_variant | 0.17 |
thyA | 3073868 | p.Thr202Ala | missense_variant | 0.11 |
fprA | 3474969 | c.963G>T | synonymous_variant | 0.29 |
fbiB | 3642167 | c.633G>C | synonymous_variant | 0.14 |
alr | 3840786 | p.Ala212Val | missense_variant | 0.11 |
clpC1 | 4038773 | p.Asp644Glu | missense_variant | 0.14 |
clpC1 | 4038776 | p.Glu643Asp | missense_variant | 0.14 |
clpC1 | 4038782 | c.1923G>C | synonymous_variant | 0.14 |
clpC1 | 4040144 | c.561G>C | synonymous_variant | 0.13 |
panD | 4044023 | c.259C>T | synonymous_variant | 0.18 |
panD | 4044209 | p.Ser25Ala | missense_variant | 0.14 |
embC | 4240597 | c.735G>T | synonymous_variant | 0.15 |
embC | 4241551 | c.1689A>T | synonymous_variant | 0.14 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242919 | c.-314A>G | upstream_gene_variant | 0.13 |
embA | 4242979 | c.-254G>T | upstream_gene_variant | 0.14 |
embA | 4245792 | p.Ser854Pro | missense_variant | 0.22 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.5 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.5 |
embB | 4246747 | p.Asp78Glu | missense_variant | 0.18 |
embB | 4247260 | c.747C>A | synonymous_variant | 0.2 |
embB | 4248360 | p.Pro616Leu | missense_variant | 0.13 |
aftB | 4268923 | c.-87C>A | upstream_gene_variant | 0.13 |
ubiA | 4269638 | p.Ala66Ser | missense_variant | 0.18 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |