Run ID: ERR4820192
Sample name:
Date: 01-04-2023 16:32:17
Number of reads: 323869
Percentage reads mapped: 83.12
Strain: La3
Drug-resistance: Other
Drug | Resistance | Supporting mutations |
---|
Lineage | Family | Main Spoligotype | RDs | Frequency |
---|---|---|---|---|
La3 | M.orygis | None | None | 1.0 |
Gene | Chromosome position | Mutation | Type | Estimated fraction | Drugs |
---|---|---|---|---|---|
rrs | 1472733 | n.888G>A | non_coding_transcript_exon_variant | 0.85 | streptomycin |
pncA | 2288847 | p.Gly132Asp | missense_variant | 0.22 | pyrazinamide |
Gene | Chromosome position | Mutation | Type | Estimated fraction |
---|---|---|---|---|
gyrB | 5516 | p.Ile93Val | missense_variant | 1.0 |
gyrB | 6109 | c.870G>A | synonymous_variant | 1.0 |
gyrB | 6227 | p.Lys330Glu | missense_variant | 0.15 |
gyrB | 6446 | p.Ala403Ser | missense_variant | 1.0 |
gyrB | 6621 | p.Asp461Gly | missense_variant | 0.18 |
gyrB | 6717 | p.Ile493Thr | missense_variant | 1.0 |
gyrA | 7362 | p.Glu21Gln | missense_variant | 1.0 |
gyrA | 7585 | p.Ser95Thr | missense_variant | 1.0 |
gyrA | 7858 | p.Ala186Val | missense_variant | 0.29 |
gyrA | 8930 | c.1629C>T | synonymous_variant | 1.0 |
gyrA | 9110 | c.1809G>A | synonymous_variant | 0.12 |
gyrA | 9143 | c.1842T>C | synonymous_variant | 1.0 |
gyrA | 9304 | p.Gly668Asp | missense_variant | 1.0 |
gyrA | 9712 | p.Met804Lys | missense_variant | 0.13 |
fgd1 | 490661 | c.-122_-121insGCGAGC | upstream_gene_variant | 1.0 |
fgd1 | 491027 | p.Asn82Thr | missense_variant | 0.3 |
fgd1 | 491742 | c.960T>C | synonymous_variant | 1.0 |
fgd1 | 491749 | p.Leu323Phe | missense_variant | 1.0 |
ccsA | 620361 | c.471C>T | synonymous_variant | 0.15 |
ccsA | 620839 | c.949C>T | synonymous_variant | 0.2 |
rpoB | 760408 | p.Ser201Asn | missense_variant | 0.17 |
rpoB | 761049 | p.Arg415Trp | missense_variant | 0.2 |
rpoB | 761152 | p.Leu449Gln | missense_variant | 0.2 |
rpoB | 761557 | p.Ala584Gly | missense_variant | 0.29 |
rpoB | 761562 | p.Ala586Ser | missense_variant | 0.29 |
rpoB | 761565 | p.Met587Leu | missense_variant | 0.29 |
rpoB | 761570 | c.1764T>C | synonymous_variant | 0.29 |
rpoB | 761600 | c.1794T>C | synonymous_variant | 0.29 |
rpoB | 761612 | c.1806G>C | synonymous_variant | 0.33 |
rpoB | 761615 | c.1809A>C | synonymous_variant | 0.33 |
rpoB | 761633 | c.1827G>C | synonymous_variant | 0.33 |
rpoB | 761642 | c.1836G>C | synonymous_variant | 0.22 |
rpoB | 761643 | p.Val613Ile | missense_variant | 0.22 |
rpoB | 761649 | p.Ser615Pro | missense_variant | 0.29 |
rpoB | 761654 | p.Glu616Asp | missense_variant | 0.29 |
rpoB | 762352 | c.2557_2562dupGACGAG | conservative_inframe_insertion | 1.0 |
rpoC | 763031 | c.-339T>C | upstream_gene_variant | 1.0 |
rpoB | 763056 | p.Thr1084Ala | missense_variant | 0.22 |
rpoC | 763483 | c.114G>C | synonymous_variant | 0.25 |
rpoC | 763486 | c.117T>C | synonymous_variant | 0.25 |
rpoC | 763492 | c.123G>C | synonymous_variant | 0.25 |
rpoC | 763504 | c.135C>T | synonymous_variant | 0.25 |
rpoC | 763528 | c.159G>C | synonymous_variant | 0.25 |
rpoC | 763531 | c.162G>C | synonymous_variant | 0.22 |
rpoC | 763534 | c.165T>C | synonymous_variant | 0.22 |
rpoC | 763537 | c.168C>G | synonymous_variant | 0.2 |
rpoC | 763546 | c.177A>G | synonymous_variant | 0.14 |
rpoC | 763550 | p.Tyr61Ala | missense_variant | 0.14 |
rpoC | 763570 | c.201G>C | synonymous_variant | 0.13 |
rpoC | 763578 | p.Phe70Tyr | missense_variant | 0.13 |
rpoC | 763585 | c.216C>G | synonymous_variant | 0.13 |
rpoC | 763589 | p.Ile74Val | missense_variant | 0.12 |
rpoC | 763600 | c.231C>T | synonymous_variant | 0.12 |
rpoC | 763606 | c.237C>A | synonymous_variant | 0.12 |
mmpL5 | 775639 | p.Ile948Val | missense_variant | 1.0 |
mmpL5 | 775967 | p.Met838Ile | missense_variant | 1.0 |
mmpL5 | 776100 | p.Thr794Ile | missense_variant | 1.0 |
mmpL5 | 776541 | p.Ser647Asn | missense_variant | 0.17 |
mmpL5 | 777613 | p.Gly290Arg | missense_variant | 0.25 |
mmpL5 | 778086 | c.394dupG | frameshift_variant | 1.0 |
mmpR5 | 779011 | p.Asp8Asn | missense_variant | 0.33 |
rpsL | 781395 | c.-165T>C | upstream_gene_variant | 1.0 |
fbiC | 1302899 | c.-32A>G | upstream_gene_variant | 1.0 |
embR | 1416964 | c.384C>G | synonymous_variant | 0.14 |
rrs | 1471659 | n.-187C>T | upstream_gene_variant | 1.0 |
rrs | 1471755 | n.-91C>A | upstream_gene_variant | 0.14 |
rrs | 1472507 | n.662C>G | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472517 | n.672T>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472518 | n.673G>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472530 | n.685G>A | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472537 | n.692C>T | non_coding_transcript_exon_variant | 1.0 |
rrs | 1472544 | n.699C>A | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472545 | n.700A>T | non_coding_transcript_exon_variant | 0.88 |
rrs | 1472557 | n.712G>A | non_coding_transcript_exon_variant | 0.4 |
rrs | 1472566 | n.721G>A | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472570 | n.725G>A | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472571 | n.726G>C | non_coding_transcript_exon_variant | 0.91 |
rrs | 1472579 | n.734G>C | non_coding_transcript_exon_variant | 0.83 |
rrs | 1472579 | n.734G>T | non_coding_transcript_exon_variant | 0.83 |
rrs | 1472580 | n.735C>T | non_coding_transcript_exon_variant | 0.45 |
rrs | 1472581 | n.736A>T | non_coding_transcript_exon_variant | 0.91 |
rrs | 1472598 | n.753A>C | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472599 | n.754G>T | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472612 | n.767G>T | non_coding_transcript_exon_variant | 0.54 |
rrs | 1472616 | n.771G>A | non_coding_transcript_exon_variant | 0.92 |
rrs | 1472655 | n.810G>A | non_coding_transcript_exon_variant | 0.9 |
rrs | 1472658 | n.813G>A | non_coding_transcript_exon_variant | 0.89 |
rrs | 1472661 | n.816A>G | non_coding_transcript_exon_variant | 0.89 |
rrs | 1472665 | n.820G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472680 | n.835C>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472689 | n.844C>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472690 | n.845C>A | non_coding_transcript_exon_variant | 0.8 |
rrs | 1472695 | n.850C>T | non_coding_transcript_exon_variant | 0.18 |
rrs | 1472697 | n.852T>C | non_coding_transcript_exon_variant | 0.92 |
rrs | 1472700 | n.855C>T | non_coding_transcript_exon_variant | 0.27 |
rrs | 1472713 | n.868T>C | non_coding_transcript_exon_variant | 0.89 |
rrs | 1472716 | n.871C>T | non_coding_transcript_exon_variant | 0.89 |
rrs | 1472742 | n.897C>T | non_coding_transcript_exon_variant | 0.84 |
rrs | 1472744 | n.899A>G | non_coding_transcript_exon_variant | 0.84 |
rrs | 1472767 | n.922G>A | non_coding_transcript_exon_variant | 0.12 |
rrs | 1472781 | n.936C>T | non_coding_transcript_exon_variant | 0.58 |
rrs | 1472793 | n.948A>T | non_coding_transcript_exon_variant | 0.6 |
rrs | 1472803 | n.958T>A | non_coding_transcript_exon_variant | 0.55 |
rrs | 1472895 | n.1050C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472953 | n.1108G>A | non_coding_transcript_exon_variant | 0.33 |
rrs | 1472957 | n.1112C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472958 | n.1113A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472970 | n.1125C>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1472973 | n.1128A>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472974 | n.1129A>G | non_coding_transcript_exon_variant | 0.57 |
rrs | 1472982 | n.1137G>A | non_coding_transcript_exon_variant | 0.22 |
rrs | 1472988 | n.1143T>C | non_coding_transcript_exon_variant | 0.5 |
rrs | 1472990 | n.1145A>G | non_coding_transcript_exon_variant | 0.44 |
rrs | 1473004 | n.1159T>A | non_coding_transcript_exon_variant | 0.25 |
rrs | 1473035 | n.1190G>A | non_coding_transcript_exon_variant | 0.57 |
rrs | 1473055 | n.1210C>T | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473056 | n.1211A>T | non_coding_transcript_exon_variant | 0.62 |
rrs | 1473066 | n.1221A>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473088 | n.1243A>G | non_coding_transcript_exon_variant | 0.5 |
rrs | 1473100 | n.1255G>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473104 | n.1259C>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473110 | n.1265T>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473111 | n.1266A>G | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473121 | n.1276T>C | non_coding_transcript_exon_variant | 0.38 |
rrs | 1473123 | n.1278A>T | non_coding_transcript_exon_variant | 0.43 |
rrs | 1473148 | n.1303G>T | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473163 | n.1318C>A | non_coding_transcript_exon_variant | 0.29 |
rrs | 1473173 | n.1328C>T | non_coding_transcript_exon_variant | 0.33 |
rrl | 1474686 | n.1029A>G | non_coding_transcript_exon_variant | 0.5 |
rrl | 1474695 | n.1038A>G | non_coding_transcript_exon_variant | 0.4 |
rrl | 1474824 | n.1167A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474830 | n.1173A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1474864 | n.1207C>T | non_coding_transcript_exon_variant | 1.0 |
rrl | 1475883 | n.2226A>C | non_coding_transcript_exon_variant | 0.67 |
rrl | 1475884 | n.2227A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1475898 | n.2241A>G | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476428 | n.2771C>T | non_coding_transcript_exon_variant | 0.67 |
rrl | 1476481 | n.2824T>C | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476506 | n.2849T>C | non_coding_transcript_exon_variant | 0.6 |
rrl | 1476513 | n.2856G>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476515 | n.2858C>T | non_coding_transcript_exon_variant | 0.5 |
rrl | 1476524 | n.2867C>A | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476525 | n.2868A>G | non_coding_transcript_exon_variant | 0.33 |
rrl | 1476538 | n.2881A>G | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476542 | n.2885T>C | non_coding_transcript_exon_variant | 0.29 |
rrl | 1476664 | n.3007T>G | non_coding_transcript_exon_variant | 1.0 |
inhA | 1673680 | c.-522C>G | upstream_gene_variant | 1.0 |
rpsA | 1834363 | c.822G>A | synonymous_variant | 1.0 |
tlyA | 1917972 | c.33A>G | synonymous_variant | 1.0 |
tlyA | 1918541 | p.Pro201Gln | missense_variant | 0.2 |
katG | 2154707 | p.Val469Leu | missense_variant | 1.0 |
katG | 2154724 | p.Arg463Leu | missense_variant | 1.0 |
katG | 2155503 | c.609C>T | synonymous_variant | 1.0 |
katG | 2156094 | c.18A>G | synonymous_variant | 0.12 |
PPE35 | 2167697 | c.2916C>T | synonymous_variant | 1.0 |
PPE35 | 2167926 | p.Leu896Ser | missense_variant | 1.0 |
PPE35 | 2168922 | p.Thr564Arg | missense_variant | 1.0 |
PPE35 | 2169279 | c.1312_1333delAACAATGGTGTCTTTTACCGTG | frameshift_variant | 1.0 |
PPE35 | 2169902 | p.Leu237Phe | missense_variant | 0.29 |
PPE35 | 2169910 | p.Asn235Tyr | missense_variant | 0.38 |
PPE35 | 2169924 | p.Ala230Leu | missense_variant | 0.18 |
PPE35 | 2170147 | p.Ser156Ala | missense_variant | 0.17 |
PPE35 | 2170457 | c.156G>C | synonymous_variant | 0.29 |
PPE35 | 2170460 | c.153G>A | synonymous_variant | 0.25 |
PPE35 | 2170465 | p.Ala50Ser | missense_variant | 0.2 |
PPE35 | 2170472 | c.141G>A | synonymous_variant | 0.25 |
PPE35 | 2170669 | c.-57G>A | upstream_gene_variant | 1.0 |
Rv1979c | 2221771 | p.Leu465Pro | missense_variant | 0.14 |
Rv1979c | 2222308 | p.Asp286Gly | missense_variant | 1.0 |
Rv1979c | 2222919 | c.246A>G | synonymous_variant | 0.12 |
Rv1979c | 2223293 | c.-129A>G | upstream_gene_variant | 1.0 |
pncA | 2289978 | c.-737T>G | upstream_gene_variant | 1.0 |
kasA | 2518132 | c.18C>T | synonymous_variant | 1.0 |
ahpC | 2726166 | c.-27T>A | upstream_gene_variant | 0.17 |
ahpC | 2726378 | c.186T>A | synonymous_variant | 0.83 |
folC | 2746391 | p.Val403Ala | missense_variant | 1.0 |
pepQ | 2860027 | p.Leu131Pro | missense_variant | 0.22 |
ribD | 2986800 | c.-39T>C | upstream_gene_variant | 0.18 |
Rv2752c | 3065414 | p.Ser260Thr | missense_variant | 0.29 |
Rv2752c | 3067009 | c.-818A>G | upstream_gene_variant | 1.0 |
thyX | 3067812 | p.Gln45Arg | missense_variant | 1.0 |
thyA | 3073969 | p.Ala168Val | missense_variant | 0.22 |
ald | 3086728 | c.-92C>T | upstream_gene_variant | 1.0 |
ald | 3086788 | c.-32T>C | upstream_gene_variant | 1.0 |
ald | 3087084 | c.266delA | frameshift_variant | 1.0 |
fprA | 3473996 | c.-11_-10insA | upstream_gene_variant | 1.0 |
fprA | 3475113 | c.1107G>A | synonymous_variant | 1.0 |
fprA | 3475159 | p.Asn385Asp | missense_variant | 1.0 |
fprA | 3475323 | c.1317T>C | synonymous_variant | 1.0 |
Rv3236c | 3612694 | c.423T>C | synonymous_variant | 1.0 |
fbiB | 3641584 | p.Val17Ala | missense_variant | 1.0 |
fbiB | 3642608 | c.1074C>T | synonymous_variant | 0.15 |
clpC1 | 4038428 | c.2277G>A | synonymous_variant | 0.29 |
clpC1 | 4039645 | p.His354Asp | missense_variant | 0.22 |
clpC1 | 4039853 | c.852G>A | synonymous_variant | 1.0 |
embC | 4240671 | p.Thr270Ile | missense_variant | 1.0 |
embC | 4241463 | p.Arg534His | missense_variant | 0.14 |
embC | 4242033 | p.Thr724Ile | missense_variant | 1.0 |
embA | 4242643 | c.-590C>T | upstream_gene_variant | 1.0 |
embA | 4244154 | p.Thr308Ala | missense_variant | 1.0 |
embA | 4244220 | c.988C>T | synonymous_variant | 1.0 |
embB | 4246848 | p.Gln112Arg | missense_variant | 0.18 |
embB | 4246864 | c.351C>T | synonymous_variant | 1.0 |
embB | 4247068 | c.555T>C | synonymous_variant | 0.5 |
embB | 4247470 | c.957T>C | synonymous_variant | 0.33 |
embB | 4247472 | p.Phe320Tyr | missense_variant | 0.33 |
embB | 4247646 | p.Glu378Ala | missense_variant | 1.0 |
aftB | 4267045 | p.Thr598Ser | missense_variant | 0.18 |
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 |
ethA | 4326431 | p.Leu348Pro | missense_variant | 0.17 |
ethA | 4326456 | p.Thr340Ala | missense_variant | 0.15 |
ethA | 4327042 | p.Asp144Asn | missense_variant | 1.0 |
ethA | 4328211 | c.-738A>G | upstream_gene_variant | 1.0 |
ethA | 4328283 | c.-810G>A | upstream_gene_variant | 0.12 |
whiB6 | 4338269 | p.Gly85Ser | missense_variant | 1.0 |
whiB6 | 4338595 | c.-75delG | upstream_gene_variant | 1.0 |
gid | 4407588 | c.615A>G | synonymous_variant | 1.0 |
gid | 4408253 | c.-51A>G | upstream_gene_variant | 0.2 |