TB-Profiler result

Run: SRR6650135
Summary

Run ID: SRR6650135

Sample name:

Date: 15-08-2023 07:33:28

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage1.1.3.1

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
lineage1 Indo-Oceanic EAI RD239 1.0
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 1.0
lineage1.1.3 Indo-Oceanic EAI6 RD239 1.0
lineage1.1.3.1 Indo-Oceanic NA RD239 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 6112 p.Met291Ile missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491014 p.Thr78Pro missense_variant 0.25
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575155 c.-193T>G upstream_gene_variant 0.16
ccsA 620752 p.Arg288Gly missense_variant 0.2
ccsA 620756 p.Asp289Gly missense_variant 0.23
ccsA 620770 p.Trp294Arg missense_variant 0.15
ccsA 620773 p.Ile295Val missense_variant 0.17
ccsA 620778 p.Asn296Lys missense_variant 0.15
rpoB 759610 c.-197T>C upstream_gene_variant 0.14
rpoB 759611 c.-196G>C upstream_gene_variant 0.29
rpoB 759615 c.-192A>C upstream_gene_variant 0.33
rpoB 759620 c.-187A>C upstream_gene_variant 0.23
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 765171 p.Pro601Leu missense_variant 1.0
rpoC 765230 p.Ala621Thr missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777572 c.909C>T synonymous_variant 1.0
mmpR5 779348 p.Val120Gly missense_variant 0.25
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801287 p.Val160Gly missense_variant 0.26
fbiC 1305434 p.Ala835Val missense_variant 1.0
Rv1258c 1407069 p.Leu91Pro missense_variant 0.14
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1474489 n.832T>G non_coding_transcript_exon_variant 0.36
fabG1 1673690 p.Val84Gly missense_variant 0.2
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918043 p.Asp35Gly missense_variant 0.14
tlyA 1918052 p.Pro38Arg missense_variant 0.35
ndh 2102538 p.Lys169Gln missense_variant 0.17
ndh 2102540 p.Ala168Gly missense_variant 0.17
ndh 2103225 c.-183A>C upstream_gene_variant 0.48
ndh 2103235 c.-193C>G upstream_gene_variant 0.3
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 1.0
PPE35 2169314 p.Asn433Lys missense_variant 0.14
PPE35 2169317 c.1296C>T synonymous_variant 0.24
PPE35 2170060 p.Val185Leu missense_variant 0.14
PPE35 2170066 p.Ala183Pro missense_variant 0.15
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2290035 c.-794G>A upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2518147 c.33C>T synonymous_variant 0.41
kasA 2518151 p.Ser13Arg missense_variant 0.36
eis 2714352 c.981C>G synonymous_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ahpC 2726267 c.75G>A synonymous_variant 0.14
ahpC 2726269 p.Val26Gly missense_variant 0.18
ahpC 2726338 p.Val49Gly missense_variant 0.22
ahpC 2726341 p.Val50Gly missense_variant 0.22
ahpC 2726343 p.Phe51Val missense_variant 0.21
ahpC 2726350 p.Trp53Leu missense_variant 0.2
ahpC 2726358 p.Asp56Asn missense_variant 0.14
ahpC 2726363 c.171C>T synonymous_variant 0.14
ribD 2987320 p.Glu161Gly missense_variant 0.19
ribD 2987323 p.Val162Gly missense_variant 0.24
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.19
fbiD 3339593 p.His159Pro missense_variant 0.17
Rv3083 3448714 p.Asp71His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
Rv3236c 3612800 p.Val106Gly missense_variant 0.18
Rv3236c 3612835 c.282T>G synonymous_variant 0.21
alr 3841253 c.168C>T synonymous_variant 1.0
alr 3841277 c.144C>T synonymous_variant 1.0
alr 3841506 c.-86A>C upstream_gene_variant 0.18
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4239973 c.111T>G synonymous_variant 0.19
embC 4240006 c.144A>C synonymous_variant 0.15
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embC 4242220 c.2358A>C synonymous_variant 0.32
embC 4242387 p.Asn842Thr missense_variant 0.21
embA 4242406 c.-827A>C upstream_gene_variant 0.24
embC 4242414 p.Leu851Arg missense_variant 0.16
embC 4242425 p.Arg855Gly missense_variant 0.14
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 1.0
embA 4244980 p.Val583Gly missense_variant 0.17
embA 4245969 p.Pro913Ser missense_variant 0.97
embB 4247616 p.Glu368Gly missense_variant 0.21
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4249298 p.Trp929Gly missense_variant 0.14
embB 4249323 p.Ala937Glu missense_variant 0.17
aftB 4268776 p.Ser21Gly missense_variant 0.36
aftB 4268786 c.51C>T synonymous_variant 0.16
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269504 c.-668A>G upstream_gene_variant 0.17
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407780 c.423G>A synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0
whiB6 4338429 c.-218_92del frameshift_variant&start_lost 1.0