Run ID: ERR2229553
Sample name:
Date: 31-03-2023 17:18:43
Number of reads: 802022
Percentage reads mapped: 93.79
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 |
fgd1 | 491528 | p.Trp249Leu | missense_variant | 0.13 |
mshA | 576260 | p.Gly305Ser | missense_variant | 0.4 |
mshA | 576337 | c.990G>T | synonymous_variant | 0.15 |
ccsA | 620202 | c.312G>A | synonymous_variant | 0.12 |
rpoB | 761526 | p.Asp574His | missense_variant | 0.12 |
rpoC | 764367 | p.Gly333Ala | missense_variant | 0.25 |
rpoC | 766194 | p.Gln942Arg | missense_variant | 0.17 |
rpoC | 766330 | p.Lys987Asn | missense_variant | 0.13 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775727 | c.2754C>G | synonymous_variant | 0.12 |
mmpL5 | 776274 | p.Ala736Asp | missense_variant | 0.14 |
mmpL5 | 777136 | p.Met449Leu | missense_variant | 0.12 |
mmpL5 | 777884 | c.597C>G | synonymous_variant | 0.18 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 800688 | c.-121C>A | upstream_gene_variant | 0.14 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1304982 | c.2052G>A | synonymous_variant | 0.15 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1474798 | n.1141C>T | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474799 | n.1143delT | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474803 | n.1146_1147insA | non_coding_transcript_exon_variant | 0.12 |
rrl | 1474806 | n.1149A>C | non_coding_transcript_exon_variant | 0.12 |
rrl | 1476206 | n.2549A>G | non_coding_transcript_exon_variant | 0.13 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.27 |
rpsA | 1834094 | p.Leu185Met | missense_variant | 0.3 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2103051 | c.-9C>A | upstream_gene_variant | 0.14 |
katG | 2155629 | p.Trp161Cys | missense_variant | 0.2 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169902 | c.711G>C | synonymous_variant | 0.14 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.16 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.38 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.36 |
Rv1979c | 2221850 | p.Leu439Ile | missense_variant | 0.14 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518771 | c.657C>T | synonymous_variant | 0.33 |
kasA | 2518864 | c.750G>C | synonymous_variant | 0.17 |
eis | 2715138 | p.Met65Ile | missense_variant | 0.12 |
folC | 2747077 | p.Glu174Asp | missense_variant | 0.15 |
Rv2752c | 3065027 | c.1165C>A | synonymous_variant | 0.2 |
Rv2752c | 3065486 | p.Ala236Ser | missense_variant | 0.12 |
thyX | 3067418 | c.528C>A | synonymous_variant | 0.13 |
thyA | 3074553 | c.-82C>A | upstream_gene_variant | 0.17 |
fprA | 3474323 | p.Ala106Glu | missense_variant | 0.17 |
Rv3236c | 3612271 | c.846T>C | synonymous_variant | 0.17 |
Rv3236c | 3612962 | p.Ala52Asp | missense_variant | 0.14 |
clpC1 | 4038563 | c.2142C>T | synonymous_variant | 0.12 |
clpC1 | 4038773 | p.Asp644Glu | missense_variant | 0.15 |
clpC1 | 4038776 | p.Glu643Asp | missense_variant | 0.15 |
clpC1 | 4039829 | p.Leu292Phe | missense_variant | 0.12 |
clpC1 | 4040404 | p.Asn101Tyr | missense_variant | 0.22 |
panD | 4044156 | p.Glu42Asp | missense_variant | 0.15 |
embC | 4241076 | p.Gly405Asp | missense_variant | 0.12 |
embC | 4241533 | c.1671T>A | synonymous_variant | 0.13 |
embC | 4241578 | c.1716G>A | synonymous_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243519 | p.Gly96Asp | missense_variant | 0.12 |
embA | 4245274 | p.Arg681Leu | missense_variant | 0.12 |
embA | 4246077 | p.Ser949Gly | missense_variant | 0.2 |
embB | 4246766 | p.Cys85Ser | missense_variant | 0.17 |
embB | 4246790 | p.Pro93Ser | missense_variant | 0.15 |
embB | 4247392 | c.879C>T | synonymous_variant | 0.18 |
aftB | 4267691 | c.1145delT | frameshift_variant | 0.2 |
aftB | 4268619 | p.Val73Gly | missense_variant | 0.25 |
ubiA | 4269485 | p.Ala117Ser | missense_variant | 0.2 |
ethR | 4326961 | c.-588G>C | upstream_gene_variant | 0.15 |
ethR | 4326964 | c.-585G>A | upstream_gene_variant | 0.15 |
ethR | 4326970 | c.-579G>T | upstream_gene_variant | 0.14 |
ethA | 4327517 | c.-44A>T | upstream_gene_variant | 0.15 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |