TB-Profiler result

Run: ERR2513682
Summary

Run ID: ERR2513682

Sample name:

Date: 31-03-2023 19:50:21

Number of reads: 1112511

Percentage reads mapped: 94.07

Strain: lineage3

Drug-resistance: Sensitive

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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
lineage3 East-African-Indian CAS RD750 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
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 7307 c.6A>G synonymous_variant 0.12
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 491027 p.Asn82Thr missense_variant 0.35
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575519 p.Ala58Thr missense_variant 0.13
mshA 576052 c.705C>T synonymous_variant 0.14
ccsA 620748 c.858T>G synonymous_variant 0.31
ccsA 620756 p.Asp289Gly missense_variant 0.31
rpoB 759746 c.-61C>T upstream_gene_variant 1.0
rpoC 762434 c.-936T>G upstream_gene_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 763456 c.87A>G synonymous_variant 0.1
rpoC 763468 c.99G>C synonymous_variant 0.1
rpoC 763486 c.117T>C synonymous_variant 0.11
rpoC 763531 c.162G>C synonymous_variant 0.12
rpoC 763534 c.165T>C synonymous_variant 0.12
rpoC 763550 p.Tyr61Ala missense_variant 0.11
rpoC 763570 c.201G>C synonymous_variant 0.12
rpoC 763578 p.Phe70Tyr missense_variant 0.13
rpoC 764318 p.Val317Ile missense_variant 0.13
rpoC 764611 c.1242G>C synonymous_variant 0.2
rpoC 764626 c.1257C>T synonymous_variant 0.11
rpoC 764632 c.1263T>C synonymous_variant 0.18
rpoC 764644 c.1275G>C synonymous_variant 0.1
rpoC 764662 c.1293G>C synonymous_variant 0.12
rpoC 766533 p.Leu1055Pro missense_variant 0.11
mmpL5 775616 c.2865G>A synonymous_variant 0.12
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
rplC 801382 p.Leu192Val missense_variant 0.11
Rv1258c 1406254 p.Gly363Cys missense_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.18
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.73
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.42
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.7
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.5
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.45
rrs 1472151 n.306C>A non_coding_transcript_exon_variant 0.31
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.46
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.58
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.31
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.27
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.29
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.67
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.75
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.75
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 1.0
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.75
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.8
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.8
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.8
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.67
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.67
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.6
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.6
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.43
rrs 1472647 n.802C>T non_coding_transcript_exon_variant 0.29
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.33
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.29
rrs 1472686 n.841G>T non_coding_transcript_exon_variant 0.22
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.25
rrs 1472690 n.845C>T non_coding_transcript_exon_variant 0.25
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.27
rrs 1472707 n.862A>T non_coding_transcript_exon_variant 0.23
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.23
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.38
rrs 1472790 n.945T>C non_coding_transcript_exon_variant 0.29
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.33
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.15
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.31
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.23
rrs 1472958 n.1113A>G non_coding_transcript_exon_variant 0.15
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.33
rrs 1472974 n.1129A>G non_coding_transcript_exon_variant 0.13
rrs 1472988 n.1143T>C non_coding_transcript_exon_variant 0.13
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.4
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.27
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.33
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.5
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.55
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.55
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.55
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.75
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.5
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.75
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.5
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.75
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.75
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.6
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.6
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.5
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.33
rrs 1473148 n.1303G>T non_coding_transcript_exon_variant 0.22
rrs 1473163 n.1318C>A non_coding_transcript_exon_variant 0.25
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.29
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.14
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.36
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.43
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.4
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.38
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.35
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.35
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.26
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.27
rrl 1474495 n.838G>A non_coding_transcript_exon_variant 1.0
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 1.0
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 1.0
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 1.0
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 1.0
rrl 1475762 n.2105G>A non_coding_transcript_exon_variant 0.5
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.4
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.4
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.4
rrl 1476267 n.2610G>T non_coding_transcript_exon_variant 0.33
rrl 1476276 n.2619C>A non_coding_transcript_exon_variant 0.25
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.22
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.22
rrl 1476297 n.2640C>G non_coding_transcript_exon_variant 0.22
rrl 1476298 n.2641C>G non_coding_transcript_exon_variant 0.22
rrl 1476300 n.2643G>T non_coding_transcript_exon_variant 0.22
rrl 1476301 n.2644A>T non_coding_transcript_exon_variant 0.22
rrl 1476309 n.2652G>C non_coding_transcript_exon_variant 0.25
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.33
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.45
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.5
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.57
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.67
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.4
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.67
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.6
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.6
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.4
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.6
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.6
rrl 1476528 n.2871A>G non_coding_transcript_exon_variant 0.4
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.4
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.6
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.6
rrl 1476754 n.3097G>T non_coding_transcript_exon_variant 0.15
rrl 1476787 n.3130C>A non_coding_transcript_exon_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102222 p.Lys274Met missense_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2169143 c.1470G>T synonymous_variant 0.12
Rv1979c 2222546 c.619T>C synonymous_variant 0.11
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289047 c.195C>T synonymous_variant 1.0
pncA 2289168 p.Ala25Val missense_variant 0.11
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726338 p.Val49Gly missense_variant 0.45
ahpC 2726341 p.Val50Gly missense_variant 0.33
Rv2752c 3064910 p.Ser428Gly missense_variant 0.16
Rv2752c 3065615 p.Asp193Asn missense_variant 0.11
thyX 3067387 p.Gly187Ser missense_variant 0.13
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474293 p.Arg96His missense_variant 0.11
fprA 3475307 p.Gly434Asp missense_variant 0.12
fbiB 3642083 c.549C>T synonymous_variant 0.15
alr 3841473 c.-53G>A upstream_gene_variant 1.0
embC 4242075 p.Arg738Gln missense_variant 1.0
embC 4242122 p.Asp754Tyr missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244211 p.Pro327Thr missense_variant 0.18
embB 4247328 p.Ser272Asn missense_variant 1.0
embB 4248637 c.2124G>A synonymous_variant 0.12
whiB6 4338288 c.234G>A synonymous_variant 0.12
whiB6 4338514 p.Tyr3Cys missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0