TB-Profiler result

Run: ERR2514655
Summary

Run ID: ERR2514655

Sample name:

Date: 31-03-2023 20:29:00

Number of reads: 641557

Percentage reads mapped: 93.46

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
gyrB 7077 p.Leu613Gln missense_variant 0.11
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7873 p.Pro191Arg missense_variant 0.12
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491316 c.534C>G synonymous_variant 0.18
fgd1 491742 c.960T>C synonymous_variant 1.0
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 763699 c.330G>T synonymous_variant 0.15
rpoC 763708 c.339G>C synonymous_variant 0.18
rpoC 763714 c.345G>C synonymous_variant 0.11
rpoC 763717 c.348T>C synonymous_variant 0.12
rpoC 763718 p.Leu117Val missense_variant 0.12
rpoC 763723 c.354G>C synonymous_variant 0.12
rpoC 763724 p.Asp119Asn missense_variant 0.12
rpoC 763729 c.360G>C synonymous_variant 0.12
rpoC 763732 c.363C>G synonymous_variant 0.12
rpoC 763735 c.366G>C synonymous_variant 0.12
rpoC 763751 p.Ile128Val missense_variant 0.11
rpoC 763781 p.Ser138Glu missense_variant 0.15
rpoC 764540 p.Val391Ile missense_variant 0.13
rpoC 764602 c.1233C>T synonymous_variant 0.17
rpoC 764605 c.1236G>T synonymous_variant 0.17
rpoC 764611 c.1242G>T synonymous_variant 0.17
rpoC 764632 c.1263T>A synonymous_variant 0.11
rpoC 764647 c.1278C>T synonymous_variant 0.12
rpoC 764650 c.1281G>T synonymous_variant 0.12
rpoC 764653 c.1284G>C synonymous_variant 0.12
rpoC 764656 c.1287C>G synonymous_variant 0.12
rpoC 764662 c.1293G>C synonymous_variant 0.12
rpoC 764677 c.1308C>G synonymous_variant 0.14
rpoC 764678 p.Lys437Gln missense_variant 0.14
rpoC 764683 c.1314G>C synonymous_variant 0.14
rpoC 764692 c.1323C>T synonymous_variant 0.14
rpoC 764706 p.Leu446Gln missense_variant 0.15
rpoC 764731 c.1362G>C 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
fbiC 1303180 p.Ile84Phe missense_variant 0.12
fbiC 1303292 p.Thr121Met missense_variant 0.11
fbiC 1304059 c.1129C>T synonymous_variant 0.11
fbiC 1304405 p.Asp492Val missense_variant 0.1
Rv1258c 1407474 c.-134G>T upstream_gene_variant 0.13
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.27
rrs 1472122 n.277G>T non_coding_transcript_exon_variant 0.3
rrs 1472123 n.278A>T non_coding_transcript_exon_variant 0.3
rrs 1472124 n.279C>T non_coding_transcript_exon_variant 0.3
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.27
rrs 1472155 n.310C>T non_coding_transcript_exon_variant 0.27
rrs 1472160 n.315C>T non_coding_transcript_exon_variant 0.27
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.29
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.5
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.5
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.5
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.5
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.5
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.67
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.4
rrs 1472599 n.754G>T non_coding_transcript_exon_variant 0.4
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.5
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.5
rrs 1472954 n.1109T>C non_coding_transcript_exon_variant 0.54
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.54
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.62
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.54
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.38
rrs 1472992 n.1147A>G non_coding_transcript_exon_variant 0.38
rrs 1473005 n.1160C>T non_coding_transcript_exon_variant 0.43
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.62
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.58
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.58
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.58
rrs 1473080 n.1235C>T non_coding_transcript_exon_variant 0.6
rrs 1473081 n.1236C>T non_coding_transcript_exon_variant 0.73
rrs 1473088 n.1243A>G non_coding_transcript_exon_variant 0.6
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.56
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.56
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.56
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.56
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.56
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.56
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.62
rrs 1473123 n.1278A>T non_coding_transcript_exon_variant 0.62
rrs 1473130 n.1285G>A non_coding_transcript_exon_variant 0.62
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.7
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.62
rrs 1473172 n.1327T>G non_coding_transcript_exon_variant 0.71
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.71
rrs 1473221 n.1376C>T non_coding_transcript_exon_variant 0.67
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.67
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.67
rrs 1473276 n.1431A>C non_coding_transcript_exon_variant 0.44
rrs 1473277 n.1432G>A non_coding_transcript_exon_variant 0.44
rrs 1473293 n.1449delA non_coding_transcript_exon_variant 0.5
rrs 1473300 n.1455C>T non_coding_transcript_exon_variant 0.5
rrs 1473301 n.1456T>G non_coding_transcript_exon_variant 0.5
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.55
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.4
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.85
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.9
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.93
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.92
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.92
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.9
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.67
rrl 1476513 n.2856G>T non_coding_transcript_exon_variant 0.4
fabG1 1674004 p.Asp189Asn missense_variant 0.13
rpsA 1833964 p.Asp141Glu missense_variant 0.14
rpsA 1834294 c.753G>C synonymous_variant 0.11
rpsA 1834298 p.Gln253Glu missense_variant 0.12
rpsA 1834306 c.765T>C synonymous_variant 0.12
rpsA 1834307 p.Asp256Gln missense_variant 0.11
rpsA 1834312 c.771G>A synonymous_variant 0.11
rpsA 1834327 c.786G>T synonymous_variant 0.1
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 2167958 c.2655G>C synonymous_variant 0.25
PPE35 2169754 p.Phe287Leu missense_variant 0.12
Rv1979c 2222393 p.Ile258Val missense_variant 0.33
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289365 c.-125delC upstream_gene_variant 1.0
ahpC 2725955 c.-238C>T upstream_gene_variant 0.11
ahpC 2726105 c.-88G>A upstream_gene_variant 1.0
ahpC 2726341 p.Val50Gly missense_variant 0.38
ahpC 2726350 p.Trp53Leu missense_variant 0.15
folC 2746956 p.Glu215Gln missense_variant 0.11
ribD 2986973 p.Phe45Leu missense_variant 0.11
ribD 2987531 c.693C>G synonymous_variant 0.1
thyA 3074529 c.-58G>C upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3086987 p.Gln56His missense_variant 0.12
ald 3087136 p.Ala106Val missense_variant 0.11
Rv3083 3449172 c.669C>A synonymous_variant 0.4
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
whiB7 3568815 c.-136G>A upstream_gene_variant 0.14
alr 3841199 c.222T>C synonymous_variant 0.1
alr 3841590 c.-170G>A upstream_gene_variant 1.0
ddn 3986942 c.103delG frameshift_variant 0.12
clpC1 4038183 p.Gly841Ala missense_variant 0.15
embC 4240960 c.1098G>A synonymous_variant 0.12
embC 4242075 p.Arg738Gln missense_variant 1.0
embC 4242485 p.Glu875Gln missense_variant 0.17
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244686 p.Ile485Thr missense_variant 0.15
ethA 4326963 p.Leu171Phe missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0