TB-Profiler result

Run: ERR4815313
Summary

Run ID: ERR4815313

Sample name:

Date: 01-04-2023 13:47:40

Number of reads: 326340

Percentage reads mapped: 86.84

Strain: lineage3

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
lineage3 East-African-Indian CAS RD750 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 6146 p.Thr303Ala missense_variant 0.4
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491545 p.Thr255Ala missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoB 762511 p.Ala902Val missense_variant 0.2
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764253 p.Arg295Leu missense_variant 0.33
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776779 p.Arg568Cys missense_variant 0.25
mmpS5 779612 c.-709_-708dupAC upstream_gene_variant 0.2
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1305266 p.Gly779Asp missense_variant 0.15
embR 1416714 p.Ile212Phe missense_variant 0.18
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 1.0
rrl 1474381 n.724T>A non_coding_transcript_exon_variant 1.0
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 1.0
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 1.0
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 1.0
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 1.0
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 1.0
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 1.0
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 1.0
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 1.0
rrl 1476536 n.2881_2882delAA non_coding_transcript_exon_variant 0.67
rrl 1476543 n.2886G>T non_coding_transcript_exon_variant 0.67
rrl 1476567 n.2910C>A non_coding_transcript_exon_variant 0.67
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.67
fabG1 1674133 p.Ile232Val missense_variant 0.22
rpsA 1834243 c.702G>C synonymous_variant 0.18
rpsA 1834249 c.708T>C synonymous_variant 0.2
rpsA 1834261 c.720A>G synonymous_variant 0.27
rpsA 1834264 c.723G>C synonymous_variant 0.33
rpsA 1834294 c.753G>C synonymous_variant 0.22
rpsA 1834298 p.Gln253Glu missense_variant 0.22
rpsA 1834303 c.762T>G synonymous_variant 0.2
rpsA 1834306 c.765T>C synonymous_variant 0.2
rpsA 1834307 p.Asp256Gln missense_variant 0.2
rpsA 1834327 c.786G>C synonymous_variant 0.2
rpsA 1834333 p.Asp264Glu missense_variant 0.18
rpsA 1834336 c.795C>G synonymous_variant 0.18
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156117 c.-6A>G upstream_gene_variant 0.25
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222254 p.Ile304Thr missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
kasA 2518551 p.Met146Thr missense_variant 0.18
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726562 p.Val124Ile missense_variant 0.15
folC 2746406 p.Phe398Ser missense_variant 0.29
folC 2746886 p.Val238Asp missense_variant 0.29
pepQ 2859520 p.Leu300Pro missense_variant 0.33
ribD 2987187 c.349C>T synonymous_variant 1.0
Rv2752c 3067009 c.-818A>G upstream_gene_variant 0.2
thyA 3073729 p.Val248Glu missense_variant 0.22
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiA 3640886 p.Arg115His missense_variant 1.0
ddn 3986997 p.Thr52Ala missense_variant 0.25
ddn 3987121 p.Lys93Arg missense_variant 0.4
clpC1 4039356 p.Leu450Gln missense_variant 0.25
clpC1 4039953 p.Asp251Gly missense_variant 0.25
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243911 p.Leu227Phe missense_variant 1.0
aftB 4268074 p.Ile255Val missense_variant 0.67
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0