TB-Profiler result

Run: ERR4819723
Summary

Run ID: ERR4819723

Sample name:

Date: 01-04-2023 16:16:06

Number of reads: 349142

Percentage reads mapped: 94.31

Strain:

Drug-resistance: Other

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
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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.93 streptomycin
gid 4407967 p.Leu79Ser missense_variant 1.0 streptomycin
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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
gyrA 9596 c.2295G>T synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 620760 c.872delA frameshift_variant 0.4
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoB 762640 p.Gly945Glu missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoB 763252 p.Leu1149Pro missense_variant 0.29
rpoC 764181 p.Asp271Gly missense_variant 1.0
mmpL5 775610 c.2870delC frameshift_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776009 c.2472A>G synonymous_variant 0.29
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776269 p.Ile738Val missense_variant 0.17
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800904 c.96G>A synonymous_variant 0.29
fbiC 1303457 p.Ala176Glu missense_variant 0.25
fbiC 1304571 c.1641G>T synonymous_variant 0.17
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472431 n.586G>A non_coding_transcript_exon_variant 1.0
rrs 1472435 n.590T>C non_coding_transcript_exon_variant 1.0
rrs 1472438 n.593T>C non_coding_transcript_exon_variant 1.0
rrs 1472439 n.594C>T non_coding_transcript_exon_variant 1.0
rrs 1472447 n.602C>T non_coding_transcript_exon_variant 1.0
rrs 1472448 n.603T>C non_coding_transcript_exon_variant 1.0
rrs 1472452 n.607G>A non_coding_transcript_exon_variant 1.0
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 1.0
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 1.0
rrs 1472484 n.639A>T non_coding_transcript_exon_variant 1.0
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 1.0
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 1.0
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.86
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.86
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.78
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.89
rrs 1472574 n.729T>A non_coding_transcript_exon_variant 0.2
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.71
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.62
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.75
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.25
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.75
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.75
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.33
rrs 1472612 n.767G>T non_coding_transcript_exon_variant 0.5
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.5
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.5
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.8
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.8
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.93
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.93
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.13
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.88
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.85
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.91
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.5
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.5
rrs 1473199 n.1356delA non_coding_transcript_exon_variant 0.5
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.5
rrl 1474130 n.473C>T non_coding_transcript_exon_variant 1.0
rrl 1474140 n.483C>T non_coding_transcript_exon_variant 1.0
rrl 1474143 n.486T>C non_coding_transcript_exon_variant 1.0
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 1.0
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 1.0
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 1.0
rrl 1474275 n.618T>C non_coding_transcript_exon_variant 1.0
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.4
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.4
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.4
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.67
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.67
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.67
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.67
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.67
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.67
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.5
fabG1 1673380 c.-60C>G upstream_gene_variant 0.33
fabG1 1673572 c.136delC frameshift_variant 0.4
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102079 p.Asp322Asn missense_variant 0.15
katG 2153964 c.2148G>A synonymous_variant 0.22
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168513 c.2100C>T synonymous_variant 0.25
PPE35 2170769 c.-157C>T upstream_gene_variant 1.0
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
pncA 2289376 c.-135T>A upstream_gene_variant 0.33
kasA 2518466 p.Gly118* stop_gained 0.15
kasA 2519348 p.Ala412Thr missense_variant 0.2
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726221 c.33delC frameshift_variant 0.67
ribD 2987348 c.510G>T synonymous_variant 0.25
Rv2752c 3065806 p.Arg129His missense_variant 0.22
thyA 3073779 c.690_692delACT disruptive_inframe_deletion 0.29
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086985 p.Gln56Lys missense_variant 0.4
ald 3087487 p.Tyr223Cys missense_variant 0.4
ald 3087835 p.Leu339Pro missense_variant 0.25
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
alr 3840687 p.Asp245Ala missense_variant 0.2
clpC1 4040284 c.421C>T synonymous_variant 0.25
embC 4239685 c.-178G>A upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4249155 p.Gly881Asp missense_variant 0.17
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0