TB-Profiler result

Run: ERR2513929
Summary

Run ID: ERR2513929

Sample name:

Date: 31-03-2023 20:00:09

Number of reads: 835362

Percentage reads mapped: 97.24

Strain: lineage4.1.1.2

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 1.0
lineage4.1.1 Euro-American (X-type) X1;X2;X3 None 1.0
lineage4.1.1.2 Euro-American (X-type) X1 None 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 0.43 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 491339 p.Gly186Asp missense_variant 0.12
ccsA 620040 c.150G>A synonymous_variant 0.12
rpoB 759620 c.-187A>C upstream_gene_variant 0.29
rpoC 763933 c.564C>A synonymous_variant 0.13
rpoC 765150 p.Gly594Glu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777122 c.1359C>T synonymous_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302814 c.-117C>T upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.33
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.45
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.45
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.45
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.54
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.54
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.45
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.38
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.54
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.5
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.45
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.43
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.67
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.67
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.67
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.62
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.56
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.45
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.5
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.45
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.45
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.42
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.5
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.25
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.47
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.47
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.36
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.33
rrs 1472953 n.1111_1112delTC non_coding_transcript_exon_variant 0.25
rrs 1472959 n.1114_1115insTA non_coding_transcript_exon_variant 0.22
rrs 1472967 n.1122G>T non_coding_transcript_exon_variant 0.22
rrs 1472969 n.1125_1126delCG non_coding_transcript_exon_variant 0.22
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.33
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.22
rrs 1472977 n.1132G>T non_coding_transcript_exon_variant 0.17
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.18
rrs 1472987 n.1142G>T non_coding_transcript_exon_variant 0.17
rrs 1472988 n.1143T>A non_coding_transcript_exon_variant 0.2
rrs 1472990 n.1145A>T non_coding_transcript_exon_variant 0.2
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.17
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.33
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.22
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.22
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.25
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.22
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.22
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.18
rrs 1473262 n.1417T>C non_coding_transcript_exon_variant 0.12
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.67
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.67
rrl 1474634 n.977T>G non_coding_transcript_exon_variant 0.67
rrl 1474636 n.979A>C non_coding_transcript_exon_variant 0.67
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.67
rrl 1474658 n.1001A>G non_coding_transcript_exon_variant 0.67
rrl 1474663 n.1006C>T non_coding_transcript_exon_variant 0.67
rrl 1474734 n.1077G>C non_coding_transcript_exon_variant 0.4
rrl 1475589 n.1932G>A non_coding_transcript_exon_variant 0.33
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.11
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.12
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.12
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.12
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.13
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.13
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.13
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.13
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.15
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.15
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918034 p.Val32Gly missense_variant 0.29
ndh 2102238 p.Ile269Phe missense_variant 0.12
PPE35 2169281 c.1332T>G synonymous_variant 0.12
PPE35 2169308 c.1305C>T synonymous_variant 0.11
PPE35 2170415 c.198A>G synonymous_variant 0.12
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518144 c.29dupG frameshift_variant 0.15
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3449787 c.1284C>T synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4241572 c.1710C>T synonymous_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
embA 4243833 p.Ala201Thr missense_variant 1.0
embB 4246930 p.Gln139His missense_variant 1.0
embB 4249408 c.2895G>A synonymous_variant 0.96
ethA 4327431 p.Ser15Thr missense_variant 0.1
ethR 4327907 p.Val120Ala missense_variant 0.13
whiB6 4338595 c.-75delG upstream_gene_variant 1.0