TB-Profiler result

Run: ERR4821051
Summary

Run ID: ERR4821051

Sample name:

Date: 01-04-2023 17:02:06

Number of reads: 1584319

Percentage reads mapped: 82.42

Strain: lineage1.2.1.2.1

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
lineage1.2.1 Indo-Oceanic EAI2 RD239 1.0
lineage1.2.1.2 Indo-Oceanic NA RD239 1.0
lineage1.2.1.2.1 Indo-Oceanic NA RD239 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 0.22 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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8452 p.Ala384Val missense_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9260 c.1959G>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575368 c.21T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763531 c.162G>C synonymous_variant 1.0
rpoC 763884 p.Ala172Val missense_variant 1.0
rpoC 763886 c.517C>A synonymous_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
Rv1258c 1406312 c.1029T>C synonymous_variant 1.0
embR 1417019 p.Cys110Tyr missense_variant 1.0
atpE 1460907 c.-138T>C upstream_gene_variant 1.0
atpE 1461112 p.Gly23Val missense_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471797 n.-49G>A upstream_gene_variant 0.11
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.19
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.25
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.25
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.25
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.41
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.29
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.32
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.14
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.17
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.12
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.12
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.5
rrs 1472252 n.407G>A non_coding_transcript_exon_variant 0.14
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.14
rrs 1472256 n.411T>A non_coding_transcript_exon_variant 0.14
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.2
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.2
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.18
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.22
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.29
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.29
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.3
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.3
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.33
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.43
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.52
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.13
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.42
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.5
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.44
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.43
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.18
rrs 1472697 n.852T>G non_coding_transcript_exon_variant 0.12
rrs 1472707 n.862A>G non_coding_transcript_exon_variant 0.17
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.17
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.17
rrs 1472715 n.870C>G non_coding_transcript_exon_variant 0.14
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.2
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.46
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.22
rrs 1472754 n.909G>T non_coding_transcript_exon_variant 0.21
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.4
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.18
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.39
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.19
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.14
rrs 1472828 n.983T>C non_coding_transcript_exon_variant 0.12
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.28
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.39
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.43
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.48
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.48
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.52
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.29
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.1
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.3
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.65
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.14
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.12
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.66
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.63
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.65
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.57
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.5
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.42
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.29
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.2
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.27
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.29
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.29
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.22
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.38
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.21
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.48
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.12
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.12
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.46
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.22
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.25
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.26
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.19
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.18
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.12
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 1474084 n.431delA non_coding_transcript_exon_variant 0.2
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.13
rrl 1474197 n.540C>T non_coding_transcript_exon_variant 0.17
rrl 1474199 n.542G>C non_coding_transcript_exon_variant 0.17
rrl 1474200 n.545delT non_coding_transcript_exon_variant 0.17
rrl 1474639 n.982G>A non_coding_transcript_exon_variant 0.94
rrl 1475564 n.1907C>A non_coding_transcript_exon_variant 0.67
rrl 1475703 n.2046A>G non_coding_transcript_exon_variant 0.29
rrl 1475751 n.2094C>A non_coding_transcript_exon_variant 0.25
rrl 1475754 n.2097G>A non_coding_transcript_exon_variant 0.25
rrl 1475756 n.2099T>C non_coding_transcript_exon_variant 0.25
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.25
rrl 1475774 n.2117C>T non_coding_transcript_exon_variant 0.25
rrl 1475777 n.2120A>T non_coding_transcript_exon_variant 0.25
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.13
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.2
rrl 1476227 n.2570C>T non_coding_transcript_exon_variant 0.2
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.2
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.4
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.4
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.38
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.38
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.23
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.17
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.38
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.29
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.2
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.37
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.22
inhA 1674162 c.-40C>T upstream_gene_variant 1.0
inhA 1674387 c.186A>G synonymous_variant 0.11
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
Rv1979c 2222275 p.Asn297Ser missense_variant 0.12
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289412 c.-171C>A upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
kasA 2519048 p.Gly312Ser missense_variant 1.0
ahpC 2726051 c.-142G>A upstream_gene_variant 0.97
ahpC 2726465 c.273C>T synonymous_variant 0.17
pepQ 2859310 p.Ala370Asp missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339417 c.300A>G synonymous_variant 1.0
Rv3083 3448714 p.Asp71His missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474597 c.591C>A synonymous_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
whiB7 3568488 c.191delG frameshift_variant 1.0
fbiB 3640557 c.-978T>C upstream_gene_variant 1.0
rpoA 3878472 p.Asp12Glu missense_variant 0.11
clpC1 4040517 p.Val63Ala missense_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 4243580 c.348G>A synonymous_variant 1.0
embA 4244420 c.1188G>C synonymous_variant 1.0
embA 4245969 p.Pro913Ser missense_variant 1.0
embB 4247578 c.1065G>A synonymous_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
ubiA 4269864 c.-32delG upstream_gene_variant 1.0
ethA 4326965 p.Asp170Gly missense_variant 0.1
whiB6 4338361 p.Arg54Gln 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 4407835 c.367dupT frameshift_variant 1.0
gid 4407873 c.330G>T synonymous_variant 1.0