TB-Profiler result

Run: SRR8692871
Summary

Run ID: SRR8692871

Sample name:

Date: 13-08-2023 22:41:11

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.9

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
lineage4 Euro-American LAM;T;S;X;H None 0.99
lineage4.9 Euro-American (H37Rv-like) T1 None 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
rplC 801268 p.Cys154Arg missense_variant 1.0 linezolid
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 6657 p.Ser473* stop_gained 0.13
gyrA 7811 c.510C>T synonymous_variant 0.13
gyrA 9304 p.Gly668Asp missense_variant 0.12
mshA 575664 p.Gly106Val missense_variant 0.13
mshA 576403 c.1056C>A synonymous_variant 0.13
ccsA 619965 c.75G>T synonymous_variant 0.13
ccsA 620287 c.397C>A synonymous_variant 0.12
rpoB 760424 c.618C>G synonymous_variant 0.11
rpoB 760430 c.624T>C synonymous_variant 0.12
rpoB 760457 c.651C>T synonymous_variant 0.12
rpoB 760535 c.729C>G synonymous_variant 0.14
rpoB 760541 c.735G>C synonymous_variant 0.14
rpoB 761188 p.Arg461Leu missense_variant 0.22
rpoB 761300 c.1494G>C synonymous_variant 0.1
rpoC 763991 p.Ile208Leu missense_variant 0.14
rpoC 764005 c.636G>C synonymous_variant 0.15
rpoC 764024 c.655_657delTTGinsCTC synonymous_variant 0.18
rpoC 764029 p.Glu220Asp missense_variant 0.17
rpoC 764032 p.Asp221Glu missense_variant 0.17
rpoC 764040 p.Ser224Thr missense_variant 0.16
rpoC 764044 c.675T>C synonymous_variant 0.17
rpoC 764059 c.690G>T synonymous_variant 0.2
rpoC 764071 c.702G>C synonymous_variant 0.22
rpoC 764077 c.708C>G synonymous_variant 0.22
rpoC 764083 c.714A>G synonymous_variant 0.22
rpoC 764084 p.Asn239Val missense_variant 0.22
rpoC 764098 c.729A>G synonymous_variant 0.24
rpoC 764134 c.765C>A synonymous_variant 0.12
rpoC 764227 c.858G>T synonymous_variant 0.15
rpoC 764662 c.1293G>C synonymous_variant 0.18
rpoC 764677 c.1308C>G synonymous_variant 0.18
rpoC 764719 c.1350G>A synonymous_variant 0.19
rpoC 764746 c.1377G>T synonymous_variant 0.12
rpoC 764968 c.1599T>C synonymous_variant 0.13
rpoC 765004 c.1635G>T synonymous_variant 0.16
rpoC 765007 c.1638T>G synonymous_variant 0.16
rpoC 765008 c.1639T>C synonymous_variant 0.17
rpoC 765011 c.1642_1643delAGinsTC synonymous_variant 0.16
rpoC 765016 c.1647C>G synonymous_variant 0.17
rpoC 765019 c.1650A>G synonymous_variant 0.17
rpoC 765034 c.1665T>C synonymous_variant 0.15
rpoC 765040 c.1671T>C synonymous_variant 0.12
rpoC 765041 c.1672T>C synonymous_variant 0.12
rpoC 765047 c.1678T>C synonymous_variant 0.11
rpoC 765052 c.1683C>G synonymous_variant 0.11
rpoC 765054 p.Ser562Cys missense_variant 0.12
rpoC 767164 p.Asn1265Lys missense_variant 0.12
mmpL5 775649 c.2832G>A synonymous_variant 0.13
mmpL5 775790 c.2691C>A synonymous_variant 0.12
mmpL5 777836 c.645C>A synonymous_variant 0.2
mmpS5 778565 p.Cys114Phe missense_variant 0.12
mmpS5 779544 c.-639G>T upstream_gene_variant 0.12
rplC 801250 p.Pro148Ser missense_variant 0.13
fbiC 1303785 c.855G>A synonymous_variant 0.13
fbiC 1303944 c.1014G>A synonymous_variant 0.14
Rv1258c 1406686 p.Val219Ile missense_variant 1.0
Rv1258c 1406841 p.Thr167Met missense_variant 0.12
Rv1258c 1407322 p.Gly7Cys missense_variant 0.13
atpE 1461203 p.Phe53Leu missense_variant 0.12
atpE 1461216 p.Gly58Cys missense_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472030 n.185G>T non_coding_transcript_exon_variant 0.14
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.29
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.29
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.33
rrs 1472355 n.510C>A non_coding_transcript_exon_variant 0.2
rrs 1472489 n.644A>T non_coding_transcript_exon_variant 0.13
rrs 1472755 n.910G>A non_coding_transcript_exon_variant 0.18
rrs 1472847 n.1002G>C non_coding_transcript_exon_variant 0.18
rrs 1472848 n.1003T>G non_coding_transcript_exon_variant 0.24
rrs 1472849 n.1004C>G non_coding_transcript_exon_variant 0.19
rrs 1472850 n.1005T>C non_coding_transcript_exon_variant 0.19
rrs 1472857 n.1012A>G non_coding_transcript_exon_variant 0.18
rrs 1472858 n.1013G>T non_coding_transcript_exon_variant 0.18
rrs 1472859 n.1014G>C non_coding_transcript_exon_variant 0.19
rrs 1472860 n.1015C>G non_coding_transcript_exon_variant 0.28
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.29
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.29
rrs 1472969 n.1124A>G non_coding_transcript_exon_variant 0.21
rrs 1472970 n.1125C>G non_coding_transcript_exon_variant 0.21
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.21
rrs 1472977 n.1132G>C non_coding_transcript_exon_variant 0.2
rrs 1472978 n.1133T>C non_coding_transcript_exon_variant 0.2
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.19
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.19
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.13
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.12
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.12
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.2
rrs 1473292 n.1447G>A non_coding_transcript_exon_variant 0.12
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.16
rrl 1473404 n.-254C>A upstream_gene_variant 0.15
rrl 1473770 n.113T>G non_coding_transcript_exon_variant 0.14
rrl 1473806 n.149C>T non_coding_transcript_exon_variant 0.2
rrl 1473811 n.154C>A non_coding_transcript_exon_variant 0.18
rrl 1474047 n.390G>T non_coding_transcript_exon_variant 0.33
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.12
rrl 1474308 n.651G>T non_coding_transcript_exon_variant 0.2
rrl 1474310 n.653T>G non_coding_transcript_exon_variant 0.2
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.22
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.33
rrl 1474552 n.895C>T non_coding_transcript_exon_variant 0.75
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.15
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.14
rrl 1475449 n.1792C>A non_coding_transcript_exon_variant 0.14
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.2
rrl 1475759 n.2102C>T non_coding_transcript_exon_variant 0.2
rrl 1475762 n.2105G>T non_coding_transcript_exon_variant 0.2
rrl 1475763 n.2106C>T non_coding_transcript_exon_variant 0.2
rrl 1475764 n.2107A>C non_coding_transcript_exon_variant 0.21
rrl 1475765 n.2108A>G non_coding_transcript_exon_variant 0.21
rrl 1475775 n.2118G>A non_coding_transcript_exon_variant 0.23
rrl 1476129 n.2472G>A non_coding_transcript_exon_variant 0.29
rrl 1476529 n.2872A>G non_coding_transcript_exon_variant 0.22
rrl 1476583 n.2926G>C non_coding_transcript_exon_variant 0.18
rrl 1476597 n.2940G>A non_coding_transcript_exon_variant 0.17
rrl 1476608 n.2951C>G non_coding_transcript_exon_variant 0.18
rrl 1476699 n.3042A>G non_coding_transcript_exon_variant 0.11
rrl 1476738 n.3081C>A non_coding_transcript_exon_variant 0.13
fabG1 1673173 c.-267G>T upstream_gene_variant 0.12
rpsA 1833436 c.-106C>A upstream_gene_variant 0.12
rpsA 1834069 c.528G>C synonymous_variant 0.1
rpsA 1834838 p.Glu433Gln missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 0.14
tlyA 1918046 p.Gly36Val missense_variant 0.12
tlyA 1918056 c.117G>T synonymous_variant 0.14
ndh 2102759 p.Ala95Asp missense_variant 0.12
katG 2155800 c.312G>A synonymous_variant 0.13
PPE35 2168938 p.Ser559Gly missense_variant 0.11
PPE35 2169253 p.Ala454Thr missense_variant 0.12
Rv1979c 2222715 c.450C>A synonymous_variant 0.17
kasA 2518853 p.Leu247Ile missense_variant 0.13
eis 2714253 p.Tyr360* stop_gained 0.22
eis 2715273 c.60C>T synonymous_variant 0.15
eis 2715406 c.-74G>T upstream_gene_variant 0.2
pepQ 2860214 p.Pro69Ser missense_variant 0.12
Rv2752c 3066143 p.Arg17Trp missense_variant 0.12
Rv2752c 3067014 c.-823G>C upstream_gene_variant 0.12
thyX 3067237 p.Asp237Tyr missense_variant 0.17
thyA 3073907 p.Ala189Pro missense_variant 0.12
ald 3086788 c.-32T>C upstream_gene_variant 0.13
Rv3083 3449072 p.Val190Ala missense_variant 0.11
Rv3083 3449521 p.Asp340Asn missense_variant 0.14
Rv3083 3449541 c.1038C>A synonymous_variant 0.18
whiB7 3568710 c.-31C>A upstream_gene_variant 0.12
Rv3236c 3611962 p.Asn385Lys missense_variant 0.12
Rv3236c 3612273 p.Val282Phe missense_variant 0.18
fbiB 3640632 c.-903C>A upstream_gene_variant 0.14
fbiB 3640833 c.-702G>T upstream_gene_variant 0.2
fbiA 3641262 p.Ile240Met missense_variant 0.13
fbiB 3642172 p.Pro213Gln missense_variant 0.18
fbiB 3642238 p.Pro235Gln missense_variant 0.12
alr 3840839 p.Met194Ile missense_variant 0.12
alr 3841043 c.378C>A synonymous_variant 0.12
alr 3841046 c.375G>T synonymous_variant 0.12
alr 3841346 p.Met25Ile missense_variant 0.2
clpC1 4038632 p.Glu691Asp missense_variant 0.12
clpC1 4039429 p.Glu426Gln missense_variant 0.1
clpC1 4039610 c.1095G>T synonymous_variant 0.13
clpC1 4039616 c.1089G>C synonymous_variant 0.12
clpC1 4039619 c.1086G>A synonymous_variant 0.12
clpC1 4039622 c.1083C>T synonymous_variant 0.12
clpC1 4039640 c.1065C>G synonymous_variant 0.11
clpC1 4039649 c.1056G>C synonymous_variant 0.11
clpC1 4039652 c.1053G>C synonymous_variant 0.1
clpC1 4039661 c.1044T>C synonymous_variant 0.11
clpC1 4039664 c.1041G>C synonymous_variant 0.11
clpC1 4039694 c.1011G>C synonymous_variant 0.11
clpC1 4039718 c.987C>G synonymous_variant 0.12
clpC1 4039724 c.981A>G synonymous_variant 0.12
clpC1 4039733 c.972G>C synonymous_variant 0.11
clpC1 4040291 c.414G>C synonymous_variant 0.2
clpC1 4040315 c.390G>A synonymous_variant 0.14
clpC1 4040318 c.387C>G synonymous_variant 0.14
clpC1 4040321 c.384C>G synonymous_variant 0.13
clpC1 4040324 c.381G>C synonymous_variant 0.13
clpC1 4040330 c.375C>G synonymous_variant 0.13
clpC1 4040345 c.360C>G synonymous_variant 0.12
clpC1 4040348 c.357G>C synonymous_variant 0.12
clpC1 4040354 c.351A>G synonymous_variant 0.12
clpC1 4040357 c.348T>C synonymous_variant 0.12
clpC1 4040618 c.87C>A synonymous_variant 0.12
clpC1 4040698 p.Glu3Lys missense_variant 0.12
panD 4044368 c.-87C>A upstream_gene_variant 0.18
embC 4240134 p.Ala91Val missense_variant 0.12
embC 4240208 p.Ala116Ser missense_variant 0.13
embC 4241132 p.Pro424Thr missense_variant 0.12
embC 4241452 c.1590G>A synonymous_variant 0.13
embA 4242523 c.-710G>T upstream_gene_variant 0.25
embC 4243140 p.Arg1093His missense_variant 0.14
embA 4243442 c.210G>T synonymous_variant 0.18
embA 4244306 c.1074G>T synonymous_variant 0.13
embA 4244555 p.Gln441His missense_variant 0.12
embA 4244580 p.Asp450Tyr missense_variant 0.13
embB 4246918 c.405G>T synonymous_variant 0.18
embB 4247902 c.1389G>A synonymous_variant 0.25
embB 4249111 c.2598T>C synonymous_variant 0.12
aftB 4267908 p.Ala310Asp missense_variant 0.12
whiB6 4338400 p.Trp41Leu missense_variant 0.12