TB-Profiler result

Run: ERR4818222
Summary

Run ID: ERR4818222

Sample name:

Date: 01-04-2023 15:26:18

Number of reads: 1050530

Percentage reads mapped: 99.38

Strain: La3

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
La3 M.orygis None None 1.0
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 5304 p.Gly22Ala missense_variant 0.14
gyrB 5482 c.243C>G synonymous_variant 0.12
gyrB 5516 p.Ile93Val missense_variant 1.0
gyrB 6109 c.870G>A synonymous_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrB 6513 p.Glu425Gly missense_variant 0.1
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 8930 c.1629C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 490661 c.-122_-121insGCGAGC upstream_gene_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
fgd1 491749 p.Leu323Phe missense_variant 1.0
mshA 575646 p.Val100Glu missense_variant 0.11
ccsA 620225 p.Glu112Val missense_variant 0.13
rpoB 761673 p.Gly623Arg missense_variant 0.12
rpoB 761915 p.Asp703Glu missense_variant 0.11
rpoB 761961 p.Pro719Ser missense_variant 0.14
rpoB 762111 p.Asn769Asp missense_variant 0.18
rpoB 762182 c.2380dupG frameshift_variant 0.11
rpoB 762352 c.2557_2562dupGACGAG conservative_inframe_insertion 0.89
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763903 p.Glu178Asp missense_variant 0.2
rpoC 766278 p.Thr970Ile missense_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777743 c.737delG frameshift_variant 0.13
mmpL5 778086 c.394dupG frameshift_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302843 c.-88A>G upstream_gene_variant 0.11
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
fbiC 1304397 c.1467A>G synonymous_variant 0.1
fbiC 1304407 p.Thr493Ala missense_variant 0.11
Rv1258c 1406269 p.Ala358Thr missense_variant 0.12
Rv1258c 1406522 c.819G>T synonymous_variant 0.13
Rv1258c 1406736 p.Thr202Asn missense_variant 0.2
Rv1258c 1407012 p.Ala110Val missense_variant 0.11
Rv1258c 1407413 c.-73C>T upstream_gene_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472179 n.334C>T non_coding_transcript_exon_variant 0.33
rrs 1472245 n.400C>T non_coding_transcript_exon_variant 0.25
rrs 1472966 n.1121A>T non_coding_transcript_exon_variant 0.2
rrl 1473429 n.-229G>A upstream_gene_variant 0.18
rrl 1473746 n.89T>C non_coding_transcript_exon_variant 0.11
rrl 1474046 n.389T>C non_coding_transcript_exon_variant 0.14
rrl 1474493 n.836G>T non_coding_transcript_exon_variant 0.33
rrl 1475148 n.1491G>T non_coding_transcript_exon_variant 0.33
rrl 1475382 n.1725A>G non_coding_transcript_exon_variant 0.2
rrl 1475539 n.1882A>G non_coding_transcript_exon_variant 1.0
rrl 1476535 n.2878G>C non_coding_transcript_exon_variant 0.2
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 1918621 p.Ser228Gly missense_variant 0.18
ndh 2102702 p.Ser114Asn missense_variant 0.13
katG 2154707 p.Val469Leu missense_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2154960 c.1152G>A synonymous_variant 0.14
katG 2155442 p.Gln224* stop_gained 0.13
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2155952 p.Val54Ile missense_variant 0.25
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169279 c.1312_1333delAACAATGGTGTCTTTTACCGTG frameshift_variant 1.0
PPE35 2170239 p.Leu125Pro missense_variant 0.12
PPE35 2170669 c.-57G>A upstream_gene_variant 1.0
Rv1979c 2221831 p.Asn445Ile missense_variant 0.11
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2222334 c.831C>T synonymous_variant 0.2
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
eis 2714868 c.465C>T synonymous_variant 0.22
eis 2715568 c.-236G>T upstream_gene_variant 0.15
ahpC 2726378 c.186T>A synonymous_variant 1.0
folC 2746391 p.Val403Ala missense_variant 1.0
pepQ 2860520 c.-103C>G upstream_gene_variant 0.14
Rv2752c 3064667 p.Arg509Gly missense_variant 0.1
Rv2752c 3067009 c.-818A>G upstream_gene_variant 1.0
thyX 3067812 p.Gln45Arg missense_variant 1.0
thyA 3074392 c.79delC frameshift_variant 0.12
thyA 3074418 p.Lys18Asn missense_variant 0.13
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
Rv3083 3448783 p.Val94Ile missense_variant 1.0
Rv3083 3449321 p.Val273Ala missense_variant 0.12
Rv3083 3449731 p.Leu410Met missense_variant 0.11
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474212 p.Lys69Arg missense_variant 0.22
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
fprA 3475328 p.Arg441Pro missense_variant 0.12
whiB7 3568875 c.-196C>T upstream_gene_variant 0.17
Rv3236c 3612694 c.423T>C synonymous_variant 1.0
fbiB 3641584 p.Val17Ala missense_variant 1.0
fbiB 3641612 c.78C>A synonymous_variant 0.15
fbiB 3642613 p.Tyr360Cys missense_variant 0.11
fbiB 3642622 p.Ala363Gly missense_variant 0.11
ddn 3986977 p.Pro45Leu missense_variant 0.15
clpC1 4038318 p.Pro796Leu missense_variant 0.17
clpC1 4039238 c.1466delG frameshift_variant 0.12
clpC1 4039306 p.Gln467Glu missense_variant 0.13
clpC1 4039853 c.852G>A synonymous_variant 1.0
clpC1 4039960 p.Thr249Ala missense_variant 0.12
clpC1 4039994 c.710delA frameshift_variant 0.14
panD 4044134 p.Asp50Asn missense_variant 1.0
embC 4239712 c.-151T>C upstream_gene_variant 0.15
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242343 c.-890G>C upstream_gene_variant 0.12
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
embA 4244607 c.1375C>T synonymous_variant 0.12
embA 4245303 p.Leu691Met missense_variant 0.12
embB 4246668 p.Thr52Asn missense_variant 0.11
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4247694 p.Ala394Val missense_variant 0.12
embB 4249734 p.Pro1074His missense_variant 0.15
embB 4249758 p.Thr1082Asn missense_variant 0.14
aftB 4267399 p.Pro480Ser missense_variant 0.17
aftB 4267760 p.Asp359Glu missense_variant 0.15
ubiA 4269216 p.Ile206Met missense_variant 0.1
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269555 c.-719C>T upstream_gene_variant 0.13
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ubiA 4269915 c.-82T>C upstream_gene_variant 0.13
ethA 4326353 p.Leu374Arg missense_variant 0.13
ethA 4327042 p.Asp144Asn missense_variant 1.0
ethA 4328211 c.-738A>G upstream_gene_variant 1.0
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 4407924 c.279G>A synonymous_variant 0.13