Run ID: ERR3468577
Sample name:
Date: 01-04-2023 02:18:13
Number of reads: 144789
Percentage reads mapped: 14.93
Strain: La1
Drug-resistance: HR-TB
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
La1 | M.bovis | None | None | 0.17 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
katG | 2155693 | p.Ser140Asn | missense_variant | 0.45 | isoniazid |
pncA | 2289073 | p.His57Asp | missense_variant | 1.0 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5752 | c.513G>A | synonymous_variant | 1.0 |
gyrA | 6406 | c.-896C>T | upstream_gene_variant | 1.0 |
gyrB | 6446 | p.Ala403Ser | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 8285 | c.984C>T | synonymous_variant | 1.0 |
gyrA | 8741 | c.1440C>T | synonymous_variant | 1.0 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9217 | p.Asp639Ala | missense_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
rpoB | 760871 | c.1065C>T | synonymous_variant | 0.25 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
rrs | 1472210 | n.365A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472214 | n.369C>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472223 | n.378C>G | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472228 | n.383G>C | non_coding_transcript_exon_variant | 0.67 |
rrs | 1472235 | n.390G>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472240 | n.395G>C | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472242 | n.397C>T | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472251 | n.406G>C | non_coding_transcript_exon_variant | 0.4 |
rrl | 1476338 | n.2681C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476356 | n.2699C>A | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476357 | n.2700T>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476358 | n.2701T>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476359 | n.2702C>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476369 | n.2712C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476381 | n.2724G>C | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476382 | n.2725A>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476383 | n.2726T>G | non_coding_transcript_exon_variant | 1.0 |
rrl | 1476384 | n.2727G>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476408 | n.2751G>A | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476411 | n.2754G>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476425 | n.2768G>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476429 | n.2772A>C | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476442 | n.2785T>A | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476443 | n.2786G>T | non_coding_transcript_exon_variant | 0.8 |
rrl | 1476455 | n.2798C>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476456 | n.2799A>T | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476463 | n.2806C>A | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476466 | n.2809C>T | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476470 | n.2813C>T | non_coding_transcript_exon_variant | 0.75 |
rrl | 1476483 | n.2826G>A | non_coding_transcript_exon_variant | 0.75 |
rpsA | 1834859 | p.Ala440Thr | missense_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1917987 | c.48G>A | synonymous_variant | 0.29 |
ndh | 2102193 | p.Arg284Trp | missense_variant | 1.0 |
ndh | 2103173 | c.-132delG | upstream_gene_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155503 | c.609C>T | synonymous_variant | 1.0 |
katG | 2155655 | p.Lys153Gln | missense_variant | 0.4 |
katG | 2155661 | p.Val151Ile | missense_variant | 0.33 |
katG | 2155662 | c.450G>C | synonymous_variant | 0.33 |
katG | 2155670 | c.442C>T | synonymous_variant | 0.5 |
katG | 2155674 | c.438G>C | synonymous_variant | 0.5 |
katG | 2155680 | c.432G>C | synonymous_variant | 0.5 |
katG | 2155691 | c.421T>C | synonymous_variant | 0.45 |
katG | 2155696 | p.Ala139Gly | missense_variant | 0.45 |
katG | 2155716 | c.396T>G | synonymous_variant | 0.54 |
katG | 2155728 | c.384G>C | synonymous_variant | 0.54 |
katG | 2155735 | p.Met126Gln | missense_variant | 0.54 |
katG | 2155737 | c.375C>A | synonymous_variant | 0.54 |
katG | 2155743 | c.369G>C | synonymous_variant | 0.54 |
katG | 2155765 | p.His116Ala | missense_variant | 0.5 |
katG | 2155768 | p.Ile115Thr | missense_variant | 0.5 |
katG | 2155785 | p.Ala109Ser | missense_variant | 0.5 |
katG | 2155794 | c.318G>C | synonymous_variant | 0.57 |
katG | 2155800 | c.312G>C | synonymous_variant | 0.57 |
katG | 2155806 | c.306T>C | synonymous_variant | 0.57 |
katG | 2155815 | c.297G>C | synonymous_variant | 0.57 |
katG | 2155824 | c.288C>G | synonymous_variant | 0.33 |
katG | 2155828 | p.Tyr95Phe | missense_variant | 0.33 |
katG | 2155833 | c.279C>G | synonymous_variant | 0.33 |
katG | 2155836 | c.276C>G | synonymous_variant | 0.4 |
katG | 2155845 | c.267G>C | synonymous_variant | 0.5 |
katG | 2156025 | c.87C>A | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168319 | p.Thr765Ile | missense_variant | 1.0 |
PPE35 | 2168814 | c.1798dupA | frameshift_variant | 1.0 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
eis | 2715125 | p.Thr70Ala | missense_variant | 1.0 |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3086830 | p.Gly4Asp | missense_variant | 0.33 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
Rv3083 | 3448783 | p.Val94Ile | missense_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3474427 | p.Val141Ile | missense_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
clpC1 | 4038403 | c.2302T>C | synonymous_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4242970 | c.-263C>T | upstream_gene_variant | 1.0 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embB | 4246551 | p.Asn13Ser | missense_variant | 1.0 |
embB | 4246864 | c.351C>T | synonymous_variant | 1.0 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
aftB | 4267858 | p.Ile327Val | missense_variant | 1.0 |
aftB | 4269351 | c.-515C>T | upstream_gene_variant | 1.0 |
ubiA | 4269387 | p.Glu149Asp | missense_variant | 1.0 |
aftB | 4269606 | c.-770T>C | upstream_gene_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4408237 | c.-35C>A | upstream_gene_variant | 1.0 |