TB-Profiler result

Run: ERR2514753
Summary

Run ID: ERR2514753

Sample name:

Date: 31-03-2023 20:32:29

Number of reads: 1798463

Percentage reads mapped: 83.83

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 0.8 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
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
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 776429 c.2052C>T synonymous_variant 0.15
mmpL5 778407 p.Pro25His missense_variant 0.12
mmpS5 778592 p.Ala105Glu missense_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471766 n.-80G>A upstream_gene_variant 0.22
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.8
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.8
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.8
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.8
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.8
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.8
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.8
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.8
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.8
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.75
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 1.0
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.8
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.8
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.4
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 1.0
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 1.0
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 1.0
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.86
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.86
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.75
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.86
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.86
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.86
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.75
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.88
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.44
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 0.8
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.8
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.33
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.22
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.3
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.58
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.69
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.69
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.69
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.5
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.64
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.8
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.8
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.79
rrs 1473101 n.1256C>T non_coding_transcript_exon_variant 0.5
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.29
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.79
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.79
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.79
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.21
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.79
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.62
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.62
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.82
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.64
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.64
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.6
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.43
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.43
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.33
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.29
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.2
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.25
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.5
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.5
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.5
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.5
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.4
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.4
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.4
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.4
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.4
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.4
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.4
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.4
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.4
rrl 1476229 n.2572C>G non_coding_transcript_exon_variant 0.4
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.5
rrl 1476252 n.2595T>A non_coding_transcript_exon_variant 0.5
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.5
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.5
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.4
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.67
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.6
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.6
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.75
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.75
fabG1 1673166 c.-274C>T upstream_gene_variant 0.11
fabG1 1673926 p.Met163Val missense_variant 0.1
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154141 p.Phe657Leu missense_variant 0.14
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169224 c.1389G>T synonymous_variant 0.13
PPE35 2169662 c.951T>C synonymous_variant 0.17
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
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726732 p.Lys180Asn missense_variant 0.12
folC 2747783 c.-185G>A upstream_gene_variant 0.11
thyA 3073702 p.Ile257Thr missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3878465 p.Thr15Ala missense_variant 0.11
embC 4242075 p.Arg738Gln missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4267264 p.Arg525Ser missense_variant 0.11
aftB 4267949 c.888C>T synonymous_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0