Run ID: SRR3732653
Sample name:
Date: 04-04-2023 05:37:11
Number of reads: 632269
Percentage reads mapped: 99.56
Strain: lineage4
Drug-resistance: Sensitive
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
lineage4 | Euro-American | LAM;T;S;X;H | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5067 | c.-173A>G | upstream_gene_variant | 1.0 |
gyrB | 7097 | p.Glu620* | stop_gained | 0.33 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 9251 | c.1950G>C | synonymous_variant | 0.15 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491591 | p.Lys270Met | missense_variant | 1.0 |
mshA | 575291 | c.-57G>T | upstream_gene_variant | 0.14 |
mshA | 575679 | p.Asn111Ser | missense_variant | 1.0 |
ccsA | 620322 | c.432G>A | synonymous_variant | 0.17 |
rpoB | 760115 | c.309C>T | synonymous_variant | 1.0 |
rpoB | 760555 | p.Glu250Gly | missense_variant | 1.0 |
rpoC | 765150 | p.Gly594Glu | missense_variant | 1.0 |
rpoC | 765275 | p.Arg636Trp | missense_variant | 0.18 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpR5 | 778238 | c.-752C>T | upstream_gene_variant | 1.0 |
mmpL5 | 778606 | c.-126C>T | upstream_gene_variant | 0.33 |
mmpL5 | 778612 | c.-132C>A | upstream_gene_variant | 0.33 |
mmpR5 | 779293 | p.Ala102Ser | missense_variant | 0.22 |
mmpR5 | 779301 | p.Glu104Asp | missense_variant | 0.29 |
rplC | 800807 | c.-2C>G | upstream_gene_variant | 0.33 |
fbiC | 1302920 | c.-11G>A | upstream_gene_variant | 1.0 |
fbiC | 1303536 | c.606G>T | synonymous_variant | 0.4 |
Rv1258c | 1406251 | p.Leu364Met | missense_variant | 0.2 |
Rv1258c | 1407341 | c.-1C>A | upstream_gene_variant | 0.17 |
Rv1258c | 1407443 | c.-103C>A | upstream_gene_variant | 0.2 |
embR | 1416276 | p.Arg358Ser | missense_variant | 0.18 |
embR | 1416453 | p.Arg299Cys | missense_variant | 0.13 |
rrs | 1471915 | n.70C>T | non_coding_transcript_exon_variant | 0.33 |
fabG1 | 1673866 | p.Gly143Ser | missense_variant | 0.4 |
rpsA | 1834514 | p.Glu325Lys | missense_variant | 0.67 |
tlyA | 1917769 | c.-171C>T | upstream_gene_variant | 0.25 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
ndh | 2103034 | c.9C>A | synonymous_variant | 0.67 |
PPE35 | 2169109 | p.Asp502Tyr | missense_variant | 0.4 |
PPE35 | 2169360 | p.Asn418Ser | missense_variant | 0.29 |
PPE35 | 2169506 | c.1107G>T | synonymous_variant | 0.22 |
Rv1979c | 2222991 | c.174G>T | synonymous_variant | 0.5 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289369 | c.-128C>A | upstream_gene_variant | 0.25 |
pncA | 2289750 | c.-509C>A | upstream_gene_variant | 0.25 |
kasA | 2518076 | c.-39C>T | upstream_gene_variant | 1.0 |
kasA | 2519160 | p.Ala349Glu | missense_variant | 0.2 |
eis | 2714785 | p.Arg183Pro | missense_variant | 0.29 |
eis | 2715194 | p.Val47Leu | missense_variant | 0.18 |
folC | 2746216 | p.Phe461Leu | missense_variant | 0.17 |
folC | 2746277 | p.Asp441Gly | missense_variant | 1.0 |
pepQ | 2859441 | c.978C>A | synonymous_variant | 0.29 |
ribD | 2987041 | p.Arg68Leu | missense_variant | 0.4 |
ribD | 2987111 | p.Glu91Asp | missense_variant | 0.29 |
Rv2752c | 3064819 | p.Gly458Ala | missense_variant | 0.2 |
Rv2752c | 3065733 | c.459G>A | synonymous_variant | 0.33 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
fbiD | 3339361 | p.Asp82Tyr | missense_variant | 0.33 |
fbiD | 3339372 | c.255C>T | synonymous_variant | 0.33 |
Rv3083 | 3449514 | c.1011C>A | synonymous_variant | 0.33 |
Rv3083 | 3449790 | p.Cys429* | stop_gained | 0.25 |
Rv3083 | 3449862 | c.1359C>A | synonymous_variant | 0.12 |
fprA | 3473940 | c.-67C>A | upstream_gene_variant | 0.33 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474645 | c.639C>A | synonymous_variant | 0.4 |
Rv3236c | 3612501 | p.Val206Phe | missense_variant | 0.5 |
Rv3236c | 3612839 | p.Ala93Glu | missense_variant | 0.29 |
fbiA | 3641276 | p.Pro245Gln | missense_variant | 0.18 |
fbiB | 3641529 | c.-6G>T | upstream_gene_variant | 0.25 |
alr | 3840969 | p.Thr151Met | missense_variant | 0.13 |
rpoA | 3877499 | p.Asp337Asn | missense_variant | 0.33 |
clpC1 | 4038316 | p.Gly797Cys | missense_variant | 0.2 |
clpC1 | 4040229 | p.Gly159Val | missense_variant | 0.22 |
clpC1 | 4040362 | p.Glu115* | stop_gained | 0.22 |
clpC1 | 4040396 | c.309C>T | synonymous_variant | 0.25 |
panD | 4043895 | c.387C>A | synonymous_variant | 0.29 |
panD | 4044011 | p.Ala91Ser | missense_variant | 0.67 |
embC | 4240830 | p.Pro323His | missense_variant | 0.25 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242775 | c.-458G>A | upstream_gene_variant | 0.15 |
embC | 4242803 | p.Val981Leu | missense_variant | 1.0 |
embA | 4245214 | p.Ala661Glu | missense_variant | 0.2 |
embA | 4245273 | p.Arg681Cys | missense_variant | 0.22 |
embB | 4245662 | c.-852G>T | upstream_gene_variant | 0.29 |
embB | 4247251 | c.738C>A | synonymous_variant | 0.4 |
embB | 4247738 | p.Ala409Ser | missense_variant | 0.15 |
embB | 4247809 | c.1296G>A | synonymous_variant | 0.12 |
embB | 4248533 | p.Ala674Thr | missense_variant | 0.25 |
embB | 4248612 | p.Arg700His | missense_variant | 0.18 |
embB | 4248794 | p.Ala761Ser | missense_variant | 0.25 |
aftB | 4267763 | c.1074C>A | synonymous_variant | 0.4 |
ethA | 4326732 | p.Ala248Ser | missense_variant | 0.17 |
ethR | 4327660 | p.Glu38* | stop_gained | 0.29 |
ethA | 4328337 | c.-864C>A | upstream_gene_variant | 0.17 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407790 | p.Ala138Val | missense_variant | 0.29 |
gid | 4407998 | p.Gly69Cys | missense_variant | 0.18 |