Run ID: ERR2229572
Sample name:
Date: 31-03-2023 17:19:31
Number of reads: 1084955
Percentage reads mapped: 99.05
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 | 8090 | c.789C>G | synonymous_variant | 0.1 |
mshA | 576100 | p.Asp251Glu | missense_variant | 0.18 |
mshA | 576108 | p.Ala254Gly | missense_variant | 0.14 |
mshA | 576111 | p.Ala255Gly | missense_variant | 0.17 |
ccsA | 619955 | p.Val22Ala | missense_variant | 0.13 |
rpoC | 765670 | c.2301C>T | synonymous_variant | 0.17 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776043 | p.Gly813Val | missense_variant | 0.13 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1303747 | p.Thr273Ala | missense_variant | 0.95 |
Rv1258c | 1406638 | p.Val235Phe | missense_variant | 0.17 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrl | 1474001 | n.344C>T | non_coding_transcript_exon_variant | 1.0 |
fabG1 | 1673380 | c.-60C>G | upstream_gene_variant | 0.23 |
inhA | 1673988 | c.-214G>A | upstream_gene_variant | 0.13 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2102913 | p.Ala44Ser | missense_variant | 0.2 |
katG | 2155996 | p.Trp39* | stop_gained | 0.12 |
PPE35 | 2167997 | c.2616G>C | synonymous_variant | 0.18 |
PPE35 | 2168145 | p.Pro823Leu | missense_variant | 0.18 |
PPE35 | 2168728 | p.Gly629Arg | missense_variant | 1.0 |
PPE35 | 2169790 | p.Leu275Met | missense_variant | 0.17 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.19 |
PPE35 | 2170048 | p.Leu189Val | missense_variant | 0.4 |
PPE35 | 2170053 | p.Thr187Ser | missense_variant | 0.43 |
PPE35 | 2170157 | p.Ala152Ser | missense_variant | 0.14 |
PPE35 | 2170176 | p.Leu146Gln | missense_variant | 0.13 |
PPE35 | 2170178 | c.435T>C | synonymous_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289969 | c.-728G>A | upstream_gene_variant | 0.14 |
kasA | 2518612 | c.498C>G | synonymous_variant | 0.17 |
kasA | 2518618 | c.504G>A | synonymous_variant | 0.18 |
kasA | 2518624 | c.510C>G | synonymous_variant | 0.21 |
kasA | 2518628 | p.Ser172Pro | missense_variant | 0.12 |
kasA | 2518864 | c.750G>C | synonymous_variant | 0.17 |
kasA | 2519071 | c.957C>T | synonymous_variant | 0.18 |
kasA | 2519140 | c.1026G>C | synonymous_variant | 0.18 |
kasA | 2519143 | c.1029G>C | synonymous_variant | 0.18 |
folC | 2747197 | c.402C>T | synonymous_variant | 0.12 |
ribD | 2987042 | c.204A>T | synonymous_variant | 0.18 |
Rv3083 | 3448497 | c.-7T>A | upstream_gene_variant | 1.0 |
fprA | 3474182 | p.Lys59Thr | missense_variant | 0.15 |
fprA | 3475042 | p.Gly346Ser | missense_variant | 0.12 |
fbiB | 3642414 | p.Pro294Thr | missense_variant | 0.15 |
alr | 3841546 | c.-126C>A | upstream_gene_variant | 0.2 |
clpC1 | 4039682 | c.1023C>T | synonymous_variant | 0.12 |
clpC1 | 4039730 | c.975C>G | synonymous_variant | 0.29 |
embC | 4240205 | p.Lys115Glu | missense_variant | 0.11 |
embC | 4240463 | p.Phe201Val | missense_variant | 0.14 |
embC | 4241807 | p.Pro649Ser | missense_variant | 0.13 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4243440 | p.Leu70Val | missense_variant | 0.13 |
embA | 4246018 | p.Leu929Arg | missense_variant | 0.12 |
embA | 4246122 | p.Leu964Met | missense_variant | 0.17 |
embB | 4246555 | c.42G>C | synonymous_variant | 0.21 |
embB | 4246556 | p.Ala15Pro | missense_variant | 0.21 |
embB | 4246563 | p.Leu17Trp | missense_variant | 0.19 |
embB | 4246567 | c.54_55insT | frameshift_variant | 0.13 |
embB | 4246584 | p.Arg24Pro | missense_variant | 0.11 |
embB | 4247028 | p.Leu172Gln | missense_variant | 0.29 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
Rv3083 | 3448507 | c.5_*1408del | frameshift_variant&stop_lost&splice_region_variant | 1.0 |