TB-Profiler result

Run: ERR3597001
Summary

Run ID: ERR3597001

Sample name:

Date: 01-04-2023 02:37:52

Number of reads: 3183870

Percentage reads mapped: 97.04

Strain:

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrB 5452 c.213G>A synonymous_variant 1.0
gyrA 6454 c.-848C>T upstream_gene_variant 1.0
gyrA 6721 c.-581C>T upstream_gene_variant 1.0
gyrA 7093 c.-209T>C upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7763 c.462T>C synonymous_variant 1.0
gyrA 7835 c.534A>G synonymous_variant 1.0
gyrA 7937 c.636A>G synonymous_variant 1.0
gyrA 7970 c.669T>C synonymous_variant 1.0
gyrA 7988 c.687G>C synonymous_variant 1.0
gyrA 8039 c.738T>C synonymous_variant 1.0
gyrA 8054 c.753T>C synonymous_variant 1.0
gyrA 8198 c.897T>C synonymous_variant 1.0
gyrA 8219 c.918T>C synonymous_variant 1.0
gyrA 8399 c.1098T>C synonymous_variant 1.0
gyrA 8756 c.1455A>G synonymous_variant 1.0
gyrA 8810 c.1509A>C synonymous_variant 1.0
gyrA 8813 p.Asp504Glu missense_variant 1.0
gyrA 8966 c.1665C>G synonymous_variant 1.0
gyrA 9089 c.1788G>A synonymous_variant 1.0
gyrA 9101 c.1800A>G synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9182 c.1881T>C synonymous_variant 1.0
gyrA 9200 c.1899A>G synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9377 c.2076A>G synonymous_variant 1.0
gyrA 9716 c.2415T>C synonymous_variant 1.0
gyrA 9740 c.2439G>A synonymous_variant 1.0
gyrA 9776 c.2475T>C synonymous_variant 1.0
fgd1 490666 c.-117G>T upstream_gene_variant 1.0
fgd1 490679 c.-105_-104insG upstream_gene_variant 1.0
fgd1 490687 c.-96T>C upstream_gene_variant 1.0
fgd1 491181 c.399T>C synonymous_variant 1.0
fgd1 491191 p.Gly137Arg missense_variant 1.0
fgd1 491196 c.414A>G synonymous_variant 1.0
fgd1 491212 p.Ser144Arg missense_variant 1.0
fgd1 491310 c.528C>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575216 c.-132C>A upstream_gene_variant 1.0
mshA 575665 c.318G>C synonymous_variant 1.0
mshA 576613 c.1266A>C synonymous_variant 0.21
mshA 576757 c.1410C>G synonymous_variant 1.0
ccsA 620256 c.366C>G synonymous_variant 1.0
ccsA 620257 p.Ile123Ala missense_variant 1.0
ccsA 620415 c.525T>C synonymous_variant 1.0
ccsA 620490 c.600A>C synonymous_variant 1.0
ccsA 620808 c.918T>C synonymous_variant 1.0
rpoB 759741 c.-66C>T upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763660 c.291T>C synonymous_variant 1.0
rpoC 764152 c.783C>T synonymous_variant 1.0
rpoC 765478 c.2109T>C synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 779283 c.-803G>A upstream_gene_variant 1.0
mmpL5 779295 c.-815A>G upstream_gene_variant 1.0
mmpR5 779431 p.Asn148Gln missense_variant 1.0
mmpL5 779472 c.-992G>A upstream_gene_variant 1.0
mmpS5 779523 c.-618T>A upstream_gene_variant 1.0
mmpS5 779538 c.-633A>C upstream_gene_variant 1.0
mmpS5 779539 c.-634C>A upstream_gene_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781456 c.-104A>G upstream_gene_variant 1.0
rplC 800618 c.-191T>C upstream_gene_variant 1.0
rplC 800970 c.162T>C synonymous_variant 1.0
rplC 801003 c.195G>A synonymous_variant 1.0
rplC 801267 c.459A>G synonymous_variant 1.0
fbiC 1302810 c.-121C>T upstream_gene_variant 1.0
fbiC 1302860 c.-71G>A upstream_gene_variant 1.0
fbiC 1303695 c.765T>C synonymous_variant 0.99
fbiC 1304598 c.1668C>T synonymous_variant 1.0
Rv1258c 1406466 p.Ser292Leu missense_variant 1.0
Rv1258c 1406492 c.849C>A synonymous_variant 1.0
Rv1258c 1407449 c.-109G>T upstream_gene_variant 1.0
embR 1417294 c.54A>G synonymous_variant 1.0
embR 1417454 c.-107C>A upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474438 n.781A>G non_coding_transcript_exon_variant 1.0
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 1.0
fabG1 1673257 c.-183C>G upstream_gene_variant 1.0
inhA 1674816 c.615T>C synonymous_variant 1.0
rpsA 1833381 c.-161T>C upstream_gene_variant 1.0
rpsA 1833554 p.Thr5Ala missense_variant 1.0
rpsA 1833568 c.27G>C synonymous_variant 1.0
rpsA 1834169 p.Thr210Ala missense_variant 1.0
rpsA 1834912 c.1371A>G synonymous_variant 1.0
tlyA 1917812 c.-128G>A upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2101777 c.1266C>G synonymous_variant 1.0
ndh 2102353 p.Gln230His missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156055 c.57C>T synonymous_variant 1.0
PPE35 2167649 c.2964A>G splice_region_variant&stop_retained_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169686 c.927T>C synonymous_variant 1.0
PPE35 2169717 p.Asn299Ile missense_variant 1.0
PPE35 2170065 p.Ala183Gly missense_variant 0.31
PPE35 2170232 c.381T>C synonymous_variant 1.0
PPE35 2170394 c.219G>C synonymous_variant 1.0
PPE35 2170485 p.Val43Ala missense_variant 1.0
PPE35 2170694 c.-82T>C upstream_gene_variant 1.0
PPE35 2170720 c.-108A>G upstream_gene_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2222357 p.Thr270Ala missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
Rv1979c 2223318 c.-154A>G upstream_gene_variant 1.0
pncA 2289104 c.138A>G synonymous_variant 1.0
pncA 2289700 c.-459T>C upstream_gene_variant 1.0
pncA 2289827 c.-586A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2519287 c.1173T>C synonymous_variant 1.0
eis 2714714 p.Ala207Thr missense_variant 1.0
eis 2714994 c.339T>C synonymous_variant 1.0
folC 2747204 p.Ala132Gln missense_variant 1.0
folC 2747572 c.27T>C synonymous_variant 1.0
folC 2747575 c.24G>C synonymous_variant 1.0
folC 2747628 c.-30G>C upstream_gene_variant 1.0
folC 2747631 c.-33C>G upstream_gene_variant 1.0
folC 2747691 c.-93A>G upstream_gene_variant 1.0
pepQ 2859490 p.Val310Ala missense_variant 1.0
pepQ 2860159 p.Ala87Gly missense_variant 0.22
ribD 2986929 p.Leu31Phe missense_variant 0.99
Rv2752c 3064578 c.1614C>T synonymous_variant 1.0
Rv2752c 3064971 c.1221C>T synonymous_variant 1.0
Rv2752c 3065826 c.366A>C synonymous_variant 1.0
Rv2752c 3066996 c.-805T>C upstream_gene_variant 1.0
Rv2752c 3067066 c.-875T>C upstream_gene_variant 1.0
thyX 3067355 c.591A>C synonymous_variant 1.0
thyX 3067770 p.Gly59Ala missense_variant 1.0
thyX 3067980 c.-35T>C upstream_gene_variant 1.0
thyA 3074160 c.312A>G synonymous_variant 1.0
thyA 3074238 c.234C>T synonymous_variant 1.0
thyA 3074247 c.225C>T synonymous_variant 1.0
thyA 3074529 c.-58G>C upstream_gene_variant 1.0
thyA 3074580 c.-109T>C upstream_gene_variant 0.99
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087122 c.303T>C synonymous_variant 0.99
ald 3087140 c.321G>A synonymous_variant 1.0
fbiD 3339049 c.-69C>T upstream_gene_variant 1.0
fbiD 3339402 c.285C>T synonymous_variant 1.0
fbiD 3339568 c.451C>T synonymous_variant 1.0
fbiD 3339734 p.Ala206Gly missense_variant 0.47
Rv3083 3448349 c.-155C>T upstream_gene_variant 1.0
Rv3083 3448403 c.-101G>A upstream_gene_variant 1.0
Rv3083 3448453 c.-51G>T upstream_gene_variant 1.0
Rv3083 3448474 c.-30G>T upstream_gene_variant 1.0
Rv3083 3448481 c.-23G>C upstream_gene_variant 1.0
Rv3083 3448484 c.-20T>C upstream_gene_variant 1.0
Rv3083 3448487 c.-17T>G upstream_gene_variant 1.0
Rv3083 3448495 c.-9G>C upstream_gene_variant 1.0
Rv3083 3448545 c.42A>G synonymous_variant 1.0
Rv3083 3448588 p.Asp29Asn missense_variant 1.0
Rv3083 3448606 c.103C>T synonymous_variant 1.0
Rv3083 3448611 c.108A>G synonymous_variant 1.0
Rv3083 3448869 p.His122Gln missense_variant 1.0
Rv3083 3448905 c.402T>C synonymous_variant 1.0
Rv3083 3448972 p.His157Asp missense_variant 1.0
Rv3083 3449028 c.525T>C synonymous_variant 0.99
Rv3083 3449029 p.Ser176Ala missense_variant 1.0
Rv3083 3449400 c.897C>G synonymous_variant 1.0
Rv3083 3449718 c.1215C>T synonymous_variant 1.0
Rv3083 3449868 c.1365C>A synonymous_variant 1.0
Rv3083 3449877 c.1374T>C synonymous_variant 1.0
Rv3083 3449885 p.Arg461Lys missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475059 c.1053C>T synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568687 c.-8A>T upstream_gene_variant 1.0
Rv3236c 3611968 c.1149T>G synonymous_variant 1.0
Rv3236c 3612211 c.906A>G synonymous_variant 1.0
Rv3236c 3612250 c.867A>G synonymous_variant 1.0
Rv3236c 3612301 c.816G>C synonymous_variant 1.0
Rv3236c 3612541 c.576G>A synonymous_variant 1.0
Rv3236c 3612561 p.Thr186Ala missense_variant 1.0
Rv3236c 3612577 c.540G>A synonymous_variant 1.0
Rv3236c 3612580 c.537C>G synonymous_variant 1.0
Rv3236c 3612709 c.408G>C synonymous_variant 1.0
Rv3236c 3613056 c.61C>T synonymous_variant 1.0
fbiB 3641840 c.306T>C synonymous_variant 1.0
fbiB 3642254 c.720G>A synonymous_variant 1.0
fbiB 3642467 c.933T>C synonymous_variant 1.0
fbiB 3642852 p.Pro440Ser missense_variant 1.0
fbiB 3642874 p.Leu447Arg missense_variant 1.0
alr 3840527 c.894A>C synonymous_variant 1.0
alr 3840620 c.801T>C synonymous_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
alr 3840796 p.Asp209Asn missense_variant 1.0
alr 3840914 c.507G>C synonymous_variant 1.0
alr 3840994 p.His143Asp missense_variant 1.0
alr 3841112 c.309T>C synonymous_variant 1.0
alr 3841116 p.Ala102Gly missense_variant 1.0
alr 3841172 c.249A>C synonymous_variant 1.0
alr 3841365 c.55_56insA frameshift_variant 1.0
alr 3841419 p.Val1Ala missense_variant 1.0
alr 3841531 c.-111A>G upstream_gene_variant 1.0
alr 3841532 c.-112A>G upstream_gene_variant 1.0
alr 3841539 c.-119C>T upstream_gene_variant 1.0
alr 3841546 c.-126C>G upstream_gene_variant 1.0
alr 3841568 c.-148G>A upstream_gene_variant 1.0
rpoA 3877527 c.981C>A synonymous_variant 1.0
rpoA 3877740 c.768G>A synonymous_variant 1.0
rpoA 3877886 c.622C>T synonymous_variant 1.0
rpoA 3877887 c.621G>A synonymous_variant 1.0
rpoA 3878001 c.507A>G synonymous_variant 1.0
rpoA 3878049 c.459G>A synonymous_variant 1.0
rpoA 3878600 c.-93G>C upstream_gene_variant 1.0
rpoA 3878623 c.-116C>T upstream_gene_variant 1.0
rpoA 3878637 c.-130G>A upstream_gene_variant 0.98
rpoA 3878665 c.-158A>G upstream_gene_variant 1.0
ddn 3986910 c.67C>A synonymous_variant 1.0
ddn 3987050 c.207C>T synonymous_variant 1.0
ddn 3987287 c.444T>C synonymous_variant 1.0
clpC1 4038227 c.2478G>T synonymous_variant 1.0
clpC1 4038443 c.2262G>A synonymous_variant 1.0
clpC1 4038683 c.2022T>C synonymous_variant 1.0
clpC1 4038746 c.1959C>T synonymous_variant 1.0
clpC1 4038779 c.1926C>T synonymous_variant 1.0
clpC1 4038848 c.1857C>T synonymous_variant 1.0
clpC1 4038860 c.1845G>C synonymous_variant 1.0
clpC1 4038878 c.1827A>G synonymous_variant 1.0
clpC1 4038974 c.1731T>C synonymous_variant 1.0
clpC1 4039046 c.1659C>T synonymous_variant 1.0
clpC1 4039058 c.1647C>T synonymous_variant 1.0
clpC1 4039094 c.1611C>T synonymous_variant 1.0
clpC1 4039100 c.1605C>T synonymous_variant 1.0
clpC1 4039274 c.1431G>C synonymous_variant 1.0
clpC1 4039336 c.1369C>T synonymous_variant 0.99
clpC1 4039352 c.1353C>T synonymous_variant 1.0
clpC1 4039448 c.1257A>G synonymous_variant 1.0
clpC1 4039454 c.1251A>G synonymous_variant 1.0
clpC1 4039502 c.1203C>T synonymous_variant 1.0
clpC1 4039682 c.1023C>A synonymous_variant 1.0
clpC1 4039700 c.1005C>T synonymous_variant 1.0
clpC1 4039718 c.987C>T synonymous_variant 1.0
clpC1 4039817 c.888A>C synonymous_variant 1.0
clpC1 4039820 c.885T>C synonymous_variant 1.0
clpC1 4039823 c.882T>G synonymous_variant 1.0
clpC1 4040045 c.660C>G synonymous_variant 1.0
clpC1 4040048 c.657C>T synonymous_variant 1.0
clpC1 4040063 c.642G>C synonymous_variant 1.0
clpC1 4040090 c.615T>C synonymous_variant 1.0
clpC1 4040093 c.612C>G synonymous_variant 1.0
clpC1 4040147 c.558A>G synonymous_variant 1.0
clpC1 4040159 c.546G>A synonymous_variant 1.0
clpC1 4040162 c.543G>C synonymous_variant 1.0
clpC1 4040213 c.492T>C synonymous_variant 1.0
clpC1 4040267 c.438A>G synonymous_variant 1.0
clpC1 4040273 c.432T>C synonymous_variant 1.0
clpC1 4040276 c.429C>G synonymous_variant 1.0
clpC1 4040279 c.426C>G synonymous_variant 1.0
clpC1 4040363 c.342A>G synonymous_variant 1.0
clpC1 4040393 c.312G>C synonymous_variant 1.0
clpC1 4040411 c.294T>C synonymous_variant 1.0
clpC1 4040423 c.282A>G synonymous_variant 1.0
clpC1 4040450 c.255A>G synonymous_variant 1.0
clpC1 4040471 c.234T>C synonymous_variant 1.0
clpC1 4040480 c.225T>C synonymous_variant 1.0
clpC1 4040534 c.171A>G synonymous_variant 1.0
clpC1 4040551 c.154T>C synonymous_variant 1.0
clpC1 4040573 c.132T>C synonymous_variant 1.0
clpC1 4040657 c.48T>G synonymous_variant 1.0
panD 4043932 p.Met117Thr missense_variant 1.0
panD 4044243 c.39C>G synonymous_variant 1.0
embC 4239764 c.-99G>C upstream_gene_variant 1.0
embC 4240237 c.375G>C synonymous_variant 1.0
embC 4240409 p.Pro183Ala missense_variant 0.24
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243377 p.Ser49Arg missense_variant 1.0
embA 4243690 p.Met153Thr missense_variant 1.0
embA 4243919 c.687G>A synonymous_variant 1.0
embA 4244154 p.Thr308Pro missense_variant 1.0
embA 4244312 c.1080T>G synonymous_variant 1.0
embA 4245023 c.1791A>G synonymous_variant 1.0
embB 4245701 c.-813G>T upstream_gene_variant 1.0
embB 4246529 p.Ser6Arg missense_variant 0.19
embB 4247590 c.1077A>G synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4247815 c.1302C>T synonymous_variant 1.0
embB 4248195 p.Lys561Met missense_variant 1.0
embB 4248206 p.Ser565Gly missense_variant 1.0
embB 4248439 c.1926C>T synonymous_variant 1.0
embB 4248664 c.2151G>A synonymous_variant 1.0
embB 4248721 c.2208C>T synonymous_variant 1.0
embB 4248744 p.Val744Ala missense_variant 0.98
embB 4248853 c.2340G>A synonymous_variant 1.0
embB 4249069 c.2556A>G synonymous_variant 1.0
aftB 4268331 p.Gln169Pro missense_variant 1.0
aftB 4268810 c.27G>T synonymous_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269588 c.-752G>A upstream_gene_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ubiA 4269811 p.Gln8Arg missense_variant 1.0
ethA 4326463 c.1011C>T synonymous_variant 1.0
ethA 4326740 p.Arg245His missense_variant 1.0
ethA 4327547 c.-75_-74insT upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408185 c.18C>T synonymous_variant 1.0
gyrA 9817 c.2517_*53delANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN frameshift_variant&stop_lost&splice_region_variant 1.0