TB-Profiler result

Run: ERR4192392
Summary

Run ID: ERR4192392

Sample name:

Date: 01-04-2023 05:06:40

Number of reads: 946468

Percentage reads mapped: 88.53

Strain: lineage6.1.1

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
lineage6 West-Africa 2 AFRI_1 RD702 0.99
lineage6.1.1 West-Africa 2 AFRI_1 RD702 0.99
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 0.24 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
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8337 p.Leu346Val missense_variant 1.0
gyrA 8493 p.Leu398Phe missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491668 p.Lys296Glu missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoB 760855 p.Thr350Ile missense_variant 1.0
rpoB 760969 p.Ser388Leu missense_variant 1.0
rpoB 761723 p.Glu639Asp missense_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 766231 c.2862T>C synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 779259 c.-779G>T upstream_gene_variant 0.12
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 0.95
Rv1258c 1406685 p.Val219Ala missense_variant 1.0
Rv1258c 1407506 c.-166T>C upstream_gene_variant 0.15
embR 1416633 p.Leu239Val missense_variant 0.96
atpE 1461251 c.207G>T synonymous_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.13
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.13
rrs 1472130 n.285G>A non_coding_transcript_exon_variant 0.13
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.14
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.13
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.13
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.17
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.14
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.14
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.13
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.13
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.13
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.12
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.13
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.12
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.22
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.33
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.34
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.39
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.39
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.4
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.4
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.33
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.38
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.34
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.32
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.39
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.37
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.37
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.39
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.17
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.12
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.12
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.24
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.27
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.27
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.25
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.25
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.25
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.24
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.25
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.21
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.21
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.21
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.23
rrl 1474798 n.1141C>T non_coding_transcript_exon_variant 0.22
rrl 1474801 n.1144G>C non_coding_transcript_exon_variant 0.14
rrl 1474804 n.1147C>T non_coding_transcript_exon_variant 0.24
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.24
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.21
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.24
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.19
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.19
rrl 1475235 n.1582delA non_coding_transcript_exon_variant 0.13
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.12
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.12
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.11
rrl 1476153 n.2496T>C non_coding_transcript_exon_variant 0.14
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.13
rrl 1476195 n.2538C>A non_coding_transcript_exon_variant 0.12
rrl 1476196 n.2539C>A non_coding_transcript_exon_variant 0.12
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.13
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.12
rrl 1476204 n.2547C>A non_coding_transcript_exon_variant 0.12
rrl 1476210 n.2553G>T non_coding_transcript_exon_variant 0.12
rrl 1476211 n.2554G>T non_coding_transcript_exon_variant 0.12
rrl 1476212 n.2555T>C non_coding_transcript_exon_variant 0.12
rrl 1476215 n.2558C>A non_coding_transcript_exon_variant 0.13
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.24
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.19
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.2
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.29
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.49
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.31
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.52
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.49
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.45
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.44
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.43
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.43
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.36
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.44
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.43
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.44
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.46
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.45
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.49
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.51
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.59
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.58
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.44
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.47
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.49
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.49
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.13
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.39
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.47
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.48
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.2
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.42
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.27
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.17
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.15
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.16
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.16
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.16
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.16
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.16
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.16
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.15
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.15
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.16
inhA 1673561 c.-641A>G upstream_gene_variant 0.89
inhA 1674434 p.Val78Ala missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918329 c.390C>T synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
thyX 3067909 p.Ala13Ser missense_variant 0.12
ald 3086728 c.-92C>T upstream_gene_variant 0.98
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 0.97
Rv3083 3448624 c.121C>T synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568491 p.Trp63Cys missense_variant 0.12
Rv3236c 3612143 p.Arg325His missense_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241843 p.Leu661Ile missense_variant 0.95
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243570 p.Thr113Arg missense_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embA 4244379 p.Pro383Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4268526 p.Arg104Gln missense_variant 0.14
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269522 c.-686C>T upstream_gene_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 0.97
ethA 4326465 p.Ile337Val missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338598 c.-77G>C upstream_gene_variant 0.97
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4408034 p.Glu57Lys missense_variant 1.0