Run ID: ERR2229802
Sample name:
Date: 31-03-2023 17:36:50
Number of reads: 964458
Percentage reads mapped: 99.23
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 |
mshA | 575816 | p.Leu157Met | missense_variant | 0.12 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.29 |
rpoB | 761658 | p.Pro618Ser | missense_variant | 0.14 |
rpoC | 765917 | p.Phe850Ile | missense_variant | 0.14 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775802 | p.Met893Ile | missense_variant | 0.14 |
mmpL5 | 777128 | c.1353A>G | synonymous_variant | 0.12 |
mmpL5 | 777164 | c.1317C>T | synonymous_variant | 0.14 |
mmpL5 | 778873 | c.-393G>T | upstream_gene_variant | 0.13 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rplC | 801232 | p.Gln142Lys | missense_variant | 0.12 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 1.0 |
fbiC | 1303920 | c.990C>A | synonymous_variant | 0.15 |
fbiC | 1305091 | p.Ala721Ser | missense_variant | 0.12 |
embR | 1417293 | c.55T>C | synonymous_variant | 0.12 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476169 | n.2512A>T | non_coding_transcript_exon_variant | 0.14 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.28 |
inhA | 1674740 | p.Gly180Asp | missense_variant | 0.17 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102367 | p.Ala226Pro | missense_variant | 0.13 |
ndh | 2102368 | c.675C>T | synonymous_variant | 0.13 |
ndh | 2102599 | c.444T>C | synonymous_variant | 0.14 |
ndh | 2102604 | c.439T>C | synonymous_variant | 0.12 |
ndh | 2102610 | c.433T>C | synonymous_variant | 0.12 |
ndh | 2102638 | c.405A>G | synonymous_variant | 0.12 |
ndh | 2102683 | c.360T>C | synonymous_variant | 0.18 |
ndh | 2102813 | p.Arg77Leu | missense_variant | 0.25 |
katG | 2154948 | c.1164G>A | synonymous_variant | 0.13 |
katG | 2156425 | c.-314G>T | upstream_gene_variant | 0.12 |
PPE35 | 2167745 | p.Thr956Arg | missense_variant | 0.19 |
PPE35 | 2168150 | c.2463T>C | synonymous_variant | 0.14 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169278 | c.1335T>C | synonymous_variant | 0.14 |
PPE35 | 2169281 | c.1332T>G | synonymous_variant | 0.17 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.25 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.14 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.32 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.36 |
PPE35 | 2170082 | c.531T>C | synonymous_variant | 0.12 |
Rv1979c | 2222892 | c.273C>A | synonymous_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289876 | c.-635G>A | upstream_gene_variant | 0.14 |
kasA | 2518071 | c.-44G>A | upstream_gene_variant | 0.14 |
kasA | 2519128 | c.1014G>C | synonymous_variant | 0.17 |
kasA | 2519131 | c.1017G>C | synonymous_variant | 0.18 |
kasA | 2519140 | c.1026G>C | synonymous_variant | 0.18 |
kasA | 2519143 | c.1029G>C | synonymous_variant | 0.18 |
eis | 2715155 | p.Gly60Trp | missense_variant | 0.18 |
folC | 2747008 | c.591C>A | synonymous_variant | 0.2 |
folC | 2747741 | c.-143G>A | upstream_gene_variant | 0.12 |
Rv2752c | 3064798 | p.Arg465Leu | missense_variant | 0.12 |
Rv2752c | 3065533 | p.Pro220Gln | missense_variant | 0.25 |
Rv2752c | 3066172 | p.Pro7Gln | missense_variant | 0.15 |
Rv2752c | 3066174 | c.18C>A | synonymous_variant | 0.14 |
thyX | 3067340 | c.606G>A | synonymous_variant | 0.29 |
ald | 3087424 | p.Asp202Val | missense_variant | 0.12 |
fbiB | 3642738 | p.Ile402Phe | missense_variant | 0.17 |
alr | 3840730 | p.Val231Leu | missense_variant | 0.14 |
rpoA | 3878587 | c.-80T>G | upstream_gene_variant | 1.0 |
rpoA | 3878599 | c.-92C>G | upstream_gene_variant | 1.0 |
clpC1 | 4039003 | p.Asn568Asp | missense_variant | 0.15 |
clpC1 | 4039161 | p.His515Gly | missense_variant | 0.11 |
clpC1 | 4039714 | p.Tyr331His | missense_variant | 0.13 |
clpC1 | 4040160 | p.Ala182Val | missense_variant | 0.12 |
clpC1 | 4040571 | p.Ala45Val | missense_variant | 0.12 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244046 | p.Ser272Pro | missense_variant | 0.12 |
embB | 4246544 | p.Thr11Pro | missense_variant | 0.14 |
embB | 4246548 | p.Pro12Gln | missense_variant | 0.29 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.36 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.36 |
embB | 4246747 | p.Asp78Glu | missense_variant | 0.18 |
embB | 4247028 | p.Leu172Arg | missense_variant | 0.23 |
embB | 4248717 | p.Asn735Thr | missense_variant | 0.2 |
embB | 4249758 | p.Thr1082Asn | missense_variant | 0.13 |
aftB | 4268535 | p.Gly101Val | missense_variant | 0.22 |
ethR | 4326961 | c.-588G>C | upstream_gene_variant | 0.12 |
ethR | 4326970 | c.-579G>T | upstream_gene_variant | 0.19 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407710 | p.Glu165* | stop_gained | 0.14 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |