TB-Profiler result

Run: ERR4821789
Summary

Run ID: ERR4821789

Sample name:

Date: 01-04-2023 17:27:26

Number of reads: 3180156

Percentage reads mapped: 98.99

Strain: lineage1.1.2

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
lineage1.1.2 Indo-Oceanic EAI3;EAI5 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
gyrB 6124 c.885C>T synonymous_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 491742 c.960T>C synonymous_variant 1.0
rpoB 760490 c.684C>T synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 0.99
rpoC 763886 c.517C>A synonymous_variant 0.98
rpoC 765171 p.Pro601Leu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776395 p.Phe696Leu missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.25
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.25
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.25
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.43
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.43
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.43
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 1.0
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.5
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.5
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.5
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.25
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.22
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.29
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.29
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.33
rrs 1472567 n.722G>T non_coding_transcript_exon_variant 0.33
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.33
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.33
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.33
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.33
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.5
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.67
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.57
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 0.5
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.67
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.8
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.8
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.6
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.8
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.62
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.62
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.62
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.5
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.3
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.5
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.5
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.5
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.62
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.62
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.6
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.42
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.36
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.36
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.45
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.4
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.4
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.4
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.4
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.4
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.33
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.33
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.33
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.38
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.38
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.38
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.38
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.18
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.42
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.42
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.5
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.56
rrs 1473294 n.1449A>G non_coding_transcript_exon_variant 0.43
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.38
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.38
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.38
rrl 1473384 n.-274A>G upstream_gene_variant 0.14
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.75
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.73
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.8
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.78
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.78
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.67
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.5
rrl 1476775 n.3120delC non_coding_transcript_exon_variant 0.12
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
eis 2715016 p.Arg106His missense_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.22
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
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
clpC1 4040517 p.Val63Ala missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 0.98
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 0.99
embB 4247646 p.Glu378Ala missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
ubiA 4269944 c.-111G>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 0.99
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407857 c.346C>A synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0
gid 4407980 p.Pro75Ser missense_variant 1.0
gid 4408417 c.-215G>T upstream_gene_variant 1.0