TB-Profiler result

Run: ERR216928
Summary

Run ID: ERR216928

Sample name:

Date: 31-03-2023 15:56:01

Number of reads: 1047534

Percentage reads mapped: 55.9

Strain: lineage4.9.1

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
lineage4.9 Euro-American (H37Rv-like) T1 None 1.0
lineage4.9.1 Euro-American (H37Rv-like) T1 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 1472122 n.277G>C non_coding_transcript_exon_variant 0.32 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 8978 c.1677C>T synonymous_variant 1.0
fgd1 490751 c.-32T>G upstream_gene_variant 0.29
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781717 p.Ala53Val missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.15
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.17
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.16
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.21
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.32
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.32
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.5
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.52
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.61
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.64
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.68
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.68
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.69
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.64
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.52
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.48
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.44
rrs 1472277 n.432C>G non_coding_transcript_exon_variant 0.16
rrs 1472282 n.437T>G non_coding_transcript_exon_variant 0.1
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.26
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.26
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.31
rrs 1472544 n.699C>T non_coding_transcript_exon_variant 0.38
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.44
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.51
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.52
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.52
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>A non_coding_transcript_exon_variant 0.53
rrs 1472581 n.736A>C non_coding_transcript_exon_variant 0.52
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.49
rrs 1472599 n.754G>A non_coding_transcript_exon_variant 0.49
rrs 1472600 n.755C>T non_coding_transcript_exon_variant 0.49
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.4
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.13
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.11
rrs 1472659 n.814G>A non_coding_transcript_exon_variant 0.11
rrs 1472705 n.860G>A non_coding_transcript_exon_variant 0.12
rrs 1472708 n.863T>A non_coding_transcript_exon_variant 0.14
rrs 1472715 n.870C>T non_coding_transcript_exon_variant 0.2
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.2
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.53
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.51
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.51
rrs 1472779 n.934G>A non_coding_transcript_exon_variant 0.53
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.5
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.46
rrs 1472825 n.980G>A non_coding_transcript_exon_variant 0.17
rrs 1473001 n.1156G>C non_coding_transcript_exon_variant 0.18
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.17
rrs 1473009 n.1164T>G non_coding_transcript_exon_variant 0.17
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.16
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.19
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.19
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.2
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.19
rrs 1473089 n.1244A>T non_coding_transcript_exon_variant 0.12
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.17
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.16
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.15
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.15
rrl 1475843 n.2186G>A non_coding_transcript_exon_variant 0.15
rrl 1475853 n.2196C>T non_coding_transcript_exon_variant 0.15
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.15
rrl 1475874 n.2217C>T non_coding_transcript_exon_variant 0.14
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.25
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.31
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.47
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.51
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.53
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.53
rrl 1476425 n.2768G>A non_coding_transcript_exon_variant 0.64
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.62
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.58
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.51
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.48
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.47
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.42
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.42
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.4
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.41
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.42
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.42
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.42
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.41
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.43
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.49
rrl 1476572 n.2915G>T non_coding_transcript_exon_variant 0.43
rrl 1476595 n.2938C>A non_coding_transcript_exon_variant 0.27
rrl 1476602 n.2945G>T non_coding_transcript_exon_variant 0.25
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.23
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.23
rrl 1476619 n.2962C>T non_coding_transcript_exon_variant 0.23
rrl 1476621 n.2964C>T non_coding_transcript_exon_variant 0.23
rrl 1476625 n.2968C>A non_coding_transcript_exon_variant 0.23
rrl 1476628 n.2971T>A non_coding_transcript_exon_variant 0.21
rrl 1476630 n.2973A>G non_coding_transcript_exon_variant 0.21
rrl 1476637 n.2980C>A non_coding_transcript_exon_variant 0.19
inhA 1674952 p.Pro251Ala missense_variant 0.21
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2155227 p.Gln295His missense_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289138 p.Leu35Arg missense_variant 1.0
Rv2752c 3064985 c.1207C>T synonymous_variant 0.12
Rv2752c 3065557 p.Gly212Glu missense_variant 0.11
thyA 3073806 c.666C>G synonymous_variant 0.3
ald 3086982 p.Ala55Pro missense_variant 1.0
ald 3086987 p.Gln56His missense_variant 1.0
fbiD 3339385 p.Asp90Asn missense_variant 1.0
clpC1 4038857 c.1848C>A synonymous_variant 0.21
embC 4242422 p.Trp854Gly missense_variant 0.22
embC 4242425 p.Arg855Gly missense_variant 0.36
embA 4246144 p.Ile971Asn missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0