TB-Profiler result

Run: SRR6045135
Summary

Run ID: SRR6045135

Sample name:

Date: 04-04-2023 11:53:18

Number of reads: 1082131

Percentage reads mapped: 99.11

Strain: lineage3

Drug-resistance: Other

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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
rrs 1472733 n.888G>A non_coding_transcript_exon_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 9749 c.2448G>A synonymous_variant 0.11
fgd1 491742 c.960T>C synonymous_variant 1.0
ccsA 619922 p.Ala11Asp missense_variant 0.11
ccsA 620031 c.141G>A synonymous_variant 0.22
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 777668 p.Ile271Met missense_variant 1.0
mmpL5 778687 c.-207C>T upstream_gene_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801399 c.591G>T synonymous_variant 0.14
rplC 801401 p.Val198Asp missense_variant 0.13
fbiC 1304223 c.1293G>A synonymous_variant 0.12
fbiC 1304234 p.Trp435Leu missense_variant 0.12
fbiC 1304734 p.Gln602* stop_gained 0.12
Rv1258c 1407084 p.Val86Gly missense_variant 0.33
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 1.0
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 1.0
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 1.0
rrs 1472332 n.487A>G non_coding_transcript_exon_variant 1.0
rrs 1472333 n.488G>A non_coding_transcript_exon_variant 1.0
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 1.0
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 1.0
rrs 1472536 n.691G>A non_coding_transcript_exon_variant 1.0
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 1.0
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 1.0
rrs 1472578 n.733G>A non_coding_transcript_exon_variant 1.0
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472597 n.752G>A non_coding_transcript_exon_variant 0.5
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.5
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.5
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.5
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.5
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.5
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 1.0
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 1.0
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 1.0
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 1.0
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 1.0
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 1.0
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 1.0
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 1.0
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 1.0
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 1.0
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 1.0
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 1.0
rrl 1474449 n.792G>A non_coding_transcript_exon_variant 1.0
inhA 1674420 c.219C>T synonymous_variant 0.11
inhA 1674764 p.Leu188Pro missense_variant 0.1
inhA 1674810 c.609C>T synonymous_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103191 c.-149G>A upstream_gene_variant 1.0
katG 2154581 p.Asp511Asn missense_variant 0.12
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2221732 p.Pro478Gln missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289169 p.Ala25Thr missense_variant 0.15
pncA 2289365 c.-125delC upstream_gene_variant 1.0
pncA 2289901 c.-660G>T upstream_gene_variant 0.12
kasA 2518754 p.Arg214Gly missense_variant 0.12
eis 2714566 p.Leu256Pro missense_variant 0.13
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ribD 2987352 p.Thr172Ser missense_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474957 c.951G>A synonymous_variant 0.15
rpoA 3878027 p.Arg161Cys missense_variant 0.12
clpC1 4040062 p.Ile215Val missense_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embC 4242168 p.Val769Ala missense_variant 0.11
embC 4242640 p.Trp926* stop_gained 0.11
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244867 c.1635C>A synonymous_variant 0.13
embB 4246544 p.Thr11Pro missense_variant 0.1
embB 4246556 p.Ala15Pro missense_variant 0.1
embB 4247306 p.Met265Val missense_variant 0.1
aftB 4268585 c.252G>A synonymous_variant 0.13
aftB 4268827 p.Val4Ile missense_variant 0.1
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0