TB-Profiler result

Run: ERR4816907
Summary

Run ID: ERR4816907

Sample name:

Date: 01-04-2023 14:42:05

Number of reads: 3452010

Percentage reads mapped: 96.5

Strain: lineage1.1.1

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
lineage1 Indo-Oceanic EAI RD239 1.0
lineage1.1 Indo-Oceanic EAI3;EAI4;EAI5;EAI6 RD239 1.0
lineage1.1.1 Indo-Oceanic EAI4;EAI5 RD239 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
gid 4407851 c.351delG frameshift_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
gyrB 6112 p.Met291Ile missense_variant 1.0
gyrA 6439 c.-863C>G upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7853 c.552C>T synonymous_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_variant 1.0
rpoC 765171 p.Pro601Leu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1302898 c.-33G>A upstream_gene_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472075 n.230A>G non_coding_transcript_exon_variant 0.15
rrs 1472123 n.278A>G non_coding_transcript_exon_variant 0.27
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.3
rrs 1472150 n.305T>G non_coding_transcript_exon_variant 0.36
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.33
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.29
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.38
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.18
rrs 1472513 n.668T>C non_coding_transcript_exon_variant 0.18
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.22
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.2
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.33
rrs 1472535 n.690C>T non_coding_transcript_exon_variant 0.17
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.5
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.4
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.46
rrs 1472549 n.704G>A non_coding_transcript_exon_variant 0.12
rrs 1472557 n.712G>T non_coding_transcript_exon_variant 0.12
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.18
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.41
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.19
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.44
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.47
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.13
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.46
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.43
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.15
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.33
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.19
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.31
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.5
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.33
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.23
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.14
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.14
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.25
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.25
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.17
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.17
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.21
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.19
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.19
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.21
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.19
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.2
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.17
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.16
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.16
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.17
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.13
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.12
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.21
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.28
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.26
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.29
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.18
rrl 1474353 n.696A>G non_coding_transcript_exon_variant 0.2
rrl 1474355 n.698A>G non_coding_transcript_exon_variant 0.22
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.25
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.22
rrl 1474393 n.736A>G non_coding_transcript_exon_variant 0.22
rrl 1474402 n.745T>C non_coding_transcript_exon_variant 0.22
rrl 1474467 n.810A>G non_coding_transcript_exon_variant 0.22
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.3
rrl 1474501 n.844A>G non_coding_transcript_exon_variant 0.18
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.4
rrl 1474527 n.870T>C non_coding_transcript_exon_variant 0.45
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.55
rrl 1474542 n.885A>G non_coding_transcript_exon_variant 0.55
rrl 1474551 n.894G>C non_coding_transcript_exon_variant 0.27
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.27
rrl 1474558 n.901G>T non_coding_transcript_exon_variant 0.21
rrl 1474581 n.924C>T non_coding_transcript_exon_variant 0.25
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.22
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.22
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.22
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.25
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.27
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.25
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.25
rrl 1475892 n.2235A>C non_coding_transcript_exon_variant 0.18
rrl 1475897 n.2240T>C non_coding_transcript_exon_variant 0.17
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.22
rrl 1475900 n.2243A>G non_coding_transcript_exon_variant 0.22
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.15
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.17
rrl 1476179 n.2522C>T non_coding_transcript_exon_variant 0.23
rrl 1476187 n.2530T>C non_coding_transcript_exon_variant 0.25
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.18
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.25
rrl 1476207 n.2550T>C non_coding_transcript_exon_variant 0.17
rrl 1476357 n.2700T>C non_coding_transcript_exon_variant 0.23
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.26
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.23
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.24
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.25
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.3
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.23
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.24
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.27
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.22
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.27
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.32
rrl 1476542 n.2885T>C non_coding_transcript_exon_variant 0.14
rrl 1476548 n.2891T>C non_coding_transcript_exon_variant 0.17
rrl 1476563 n.2906G>A non_coding_transcript_exon_variant 0.14
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.12
rrl 1476614 n.2957A>T non_coding_transcript_exon_variant 0.12
rpsA 1834300 c.759G>A synonymous_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2167983 p.Gly877Asp missense_variant 1.0
PPE35 2169149 c.1464G>A synonymous_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223124 p.Leu14Arg missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 1.0
Rv2752c 3064632 c.1560C>T synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
Rv3083 3448378 c.-126_-125insG upstream_gene_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 1.0
Rv3083 3448966 p.Gly155Cys missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474342 c.336G>A synonymous_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
clpC1 4040517 p.Val63Ala missense_variant 1.0
clpC1 4040857 c.-153C>T upstream_gene_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241042 p.Asn394Asp missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243848 p.Val206Met missense_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
whiB6 4338242 p.Gln94Glu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
whiB6 4338603 c.-82C>T upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0