TB-Profiler result

Run: SRR6045320
Summary

Run ID: SRR6045320

Sample name:

Date: 04-04-2023 11:56:47

Number of reads: 6460

Percentage reads mapped: 0.92

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 1.0
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
rrs 1472733 n.888G>A non_coding_transcript_exon_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
gyrA 6673 c.-629A>C upstream_gene_variant 1.0
gyrA 6676 c.-626T>G upstream_gene_variant 1.0
gyrA 6703 c.-599G>C upstream_gene_variant 1.0
gyrA 6709 c.-593A>G upstream_gene_variant 1.0
gyrA 6712 c.-590G>C upstream_gene_variant 1.0
gyrA 6715 c.-587C>T upstream_gene_variant 1.0
gyrA 6728 c.-574_-572delCTAinsTTG upstream_gene_variant 1.0
gyrA 6742 c.-560A>G upstream_gene_variant 1.0
gyrA 6745 c.-557T>G upstream_gene_variant 1.0
gyrB 6749 p.Ala504Ser missense_variant 1.0
gyrA 6760 c.-542G>C upstream_gene_variant 1.0
gyrA 6775 c.-527G>T upstream_gene_variant 1.0
gyrA 6793 c.-509T>C upstream_gene_variant 1.0
gyrB 6797 p.Gly520Thr missense_variant 1.0
gyrA 6808 c.-494C>G upstream_gene_variant 1.0
gyrA 6826 c.-476G>C upstream_gene_variant 1.0
gyrA 6835 c.-467C>T upstream_gene_variant 1.0
gyrA 6844 c.-458T>G upstream_gene_variant 1.0
gyrA 6850 c.-452C>T upstream_gene_variant 1.0
gyrA 6853 c.-449A>G upstream_gene_variant 1.0
gyrA 6856 c.-446T>C upstream_gene_variant 1.0
gyrA 6859 c.-443T>C upstream_gene_variant 1.0
gyrA 6862 c.-440C>G upstream_gene_variant 1.0
gyrA 6866 c.-436C>T upstream_gene_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7394 c.93T>C synonymous_variant 1.0
gyrA 7397 c.96G>C synonymous_variant 1.0
gyrA 7412 c.111C>G synonymous_variant 1.0
gyrA 8546 c.1245T>C synonymous_variant 1.0
gyrA 8552 c.1251C>G synonymous_variant 1.0
gyrA 8555 c.1254G>T synonymous_variant 1.0
gyrA 8561 c.1260A>C synonymous_variant 1.0
gyrA 8588 p.Glu429Asp missense_variant 1.0
gyrA 8603 c.1302A>G synonymous_variant 1.0
gyrA 8609 c.1308G>C synonymous_variant 1.0
gyrA 8619 c.1318T>C synonymous_variant 1.0
ccsA 620721 c.831G>A synonymous_variant 1.0
ccsA 620730 c.840C>T synonymous_variant 1.0
ccsA 620733 c.843G>C synonymous_variant 1.0
ccsA 620736 c.846G>T synonymous_variant 1.0
ccsA 620739 c.849A>C synonymous_variant 1.0
ccsA 620742 c.852G>C synonymous_variant 1.0
ccsA 620748 c.858T>C synonymous_variant 1.0
ccsA 620754 c.864G>T synonymous_variant 1.0
ccsA 620769 c.879C>G synonymous_variant 1.0
ccsA 620778 c.888T>C synonymous_variant 1.0
ccsA 620783 p.Ala298Val missense_variant 1.0
ccsA 620787 c.897C>T synonymous_variant 1.0
ccsA 620793 c.903G>C synonymous_variant 1.0
ccsA 620796 c.906C>G synonymous_variant 1.0
ccsA 620808 c.918T>C synonymous_variant 1.0
rpoB 760661 c.855A>C synonymous_variant 1.0
rpoB 760670 c.864G>C synonymous_variant 1.0
rpoB 760674 c.868T>C synonymous_variant 1.0
rpoB 760679 c.873A>G synonymous_variant 1.0
rpoB 760683 c.877T>C synonymous_variant 1.0
rpoB 760721 c.915C>G synonymous_variant 1.0
rpoB 760724 c.918T>C synonymous_variant 1.0
rpoB 760730 c.924T>C synonymous_variant 1.0
rpoB 761219 c.1413G>C synonymous_variant 1.0
rpoB 761220 c.1414_1416delTCGinsAGC synonymous_variant 1.0
rpoB 761249 c.1443A>G synonymous_variant 1.0
rpoB 761261 c.1455G>T synonymous_variant 1.0
rpoB 761264 c.1458C>G synonymous_variant 1.0
rpoB 761282 c.1476C>T synonymous_variant 1.0
rpoB 761300 c.1494G>C synonymous_variant 1.0
rpoB 761303 c.1497G>C synonymous_variant 1.0
rpoB 761537 c.1731C>G synonymous_variant 1.0
rpoB 761555 c.1749G>C synonymous_variant 1.0
rpoB 761558 c.1752C>G synonymous_variant 1.0
rpoB 761570 c.1764T>C synonymous_variant 1.0
rpoB 761573 c.1767C>G synonymous_variant 1.0
rpoB 761579 c.1773G>C synonymous_variant 1.0
rpoB 761600 c.1794T>C synonymous_variant 1.0
rpoB 761602 p.Ala599Asp missense_variant 1.0
rpoB 761606 c.1800C>G synonymous_variant 1.0
rpoB 761612 c.1806G>T synonymous_variant 1.0
rpoB 761615 c.1809A>C synonymous_variant 1.0
rpoB 761636 c.1830G>T synonymous_variant 1.0
rpoB 761645 c.1839C>G synonymous_variant 1.0
rpoB 761648 c.1842T>C synonymous_variant 1.0
rpoB 761657 c.1851C>A synonymous_variant 1.0
rpoB 762879 p.Met1025Leu missense_variant 1.0
rpoC 762917 c.-453C>G upstream_gene_variant 1.0
rpoC 762923 c.-447C>G upstream_gene_variant 1.0
rpoC 762929 c.-441G>T upstream_gene_variant 1.0
rpoC 762959 c.-411G>C upstream_gene_variant 1.0
rpoC 762962 c.-408C>T upstream_gene_variant 1.0
rpoC 763202 c.-168A>C upstream_gene_variant 1.0
rpoC 763205 c.-165G>C upstream_gene_variant 1.0
rpoC 763208 c.-162T>C upstream_gene_variant 1.0
rpoC 763214 c.-156T>C upstream_gene_variant 1.0
rpoC 763217 c.-153G>T upstream_gene_variant 1.0
rpoC 763226 c.-144A>G upstream_gene_variant 1.0
rpoB 763227 p.Leu1141Met missense_variant 1.0
rpoC 763232 c.-138C>T upstream_gene_variant 1.0
rpoB 763235 p.Glu1143Asp missense_variant 1.0
rpoB 763241 p.Glu1145Asp missense_variant 1.0
rpoC 763492 c.123G>C synonymous_variant 1.0
rpoC 763528 c.159G>A synonymous_variant 1.0
rpoC 763546 c.177A>G synonymous_variant 1.0
rpoC 763570 c.201G>T synonymous_variant 1.0
rpoC 763573 c.204G>C synonymous_variant 1.0
rpoC 763594 c.225C>T synonymous_variant 1.0
rpoC 763618 c.249C>G synonymous_variant 1.0
rpoC 764131 c.762T>C synonymous_variant 1.0
rpoC 764153 p.Gln262Lys missense_variant 1.0
rpoC 764161 c.792G>C synonymous_variant 1.0
rpoC 764263 c.894G>C synonymous_variant 1.0
rpoC 764266 c.897T>C synonymous_variant 1.0
rpoC 764272 c.903G>C synonymous_variant 1.0
rpoC 764278 c.909A>G synonymous_variant 1.0
rpoC 764296 c.927G>C synonymous_variant 1.0
rpoC 764716 c.1347G>C synonymous_variant 1.0
rpoC 764746 c.1377G>T synonymous_variant 1.0
rpoC 764747 c.1378C>T synonymous_variant 1.0
rpoC 764752 c.1383G>C synonymous_variant 1.0
rpoC 764758 c.1389C>G synonymous_variant 1.0
rpoC 764764 c.1395T>C synonymous_variant 1.0
rpoC 764797 c.1428G>C synonymous_variant 0.67
rpoC 764803 c.1434C>T synonymous_variant 1.0
rpoC 764809 c.1440C>T synonymous_variant 0.67
rpoC 764812 c.1443C>G synonymous_variant 1.0
rpoC 764815 c.1446A>G synonymous_variant 1.0
rpoC 764948 c.1579T>C synonymous_variant 1.0
rpoC 764962 c.1593G>C synonymous_variant 1.0
rpoC 764968 c.1599T>C synonymous_variant 1.0
rpoC 767098 c.3729T>C synonymous_variant 1.0
rpoC 767104 c.3735C>G synonymous_variant 1.0
rpoC 767119 c.3750A>G synonymous_variant 1.0
rpoC 767134 c.3765C>A synonymous_variant 1.0
mmpL5 775814 c.2667C>G synonymous_variant 1.0
mmpL5 775817 c.2664T>C synonymous_variant 1.0
mmpL5 775826 c.2655G>C synonymous_variant 1.0
mmpL5 775832 c.2649C>G synonymous_variant 1.0
mmpL5 775856 c.2625T>C synonymous_variant 1.0
mmpL5 775955 p.Ile842Val missense_variant 1.0
mmpL5 775961 c.2520C>G synonymous_variant 1.0
mmpL5 775973 c.2506_2508delTTGinsCTC synonymous_variant 1.0
mmpL5 775981 p.Leu834Met missense_variant 1.0
mmpL5 775991 c.2490G>A synonymous_variant 1.0
mmpL5 777629 c.852C>T synonymous_variant 1.0
mmpL5 777638 c.843G>C synonymous_variant 1.0
mmpL5 777647 c.834C>G synonymous_variant 1.0
mmpL5 777671 c.810G>C synonymous_variant 1.0
rplC 800642 c.-167C>T upstream_gene_variant 1.0
rplC 800645 c.-164C>G upstream_gene_variant 1.0
rplC 800648 c.-161A>T upstream_gene_variant 1.0
rplC 800654 c.-155T>C upstream_gene_variant 1.0
rplC 800693 c.-116A>G upstream_gene_variant 1.0
rplC 800715 c.-94A>C upstream_gene_variant 1.0
rplC 800720 c.-89T>C upstream_gene_variant 1.0
rplC 800723 c.-86C>G upstream_gene_variant 1.0
rplC 800729 c.-80G>C upstream_gene_variant 1.0
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 1.0
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 1.0
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 1.0
rrs 1472128 n.283G>A non_coding_transcript_exon_variant 1.0
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 1.0
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 1.0
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 1.0
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 1.0
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 1.0
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 1.0
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 1.0
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 1.0
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 1.0
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 1.0
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 1.0
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 1.0
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 1.0
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 1.0
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 1.0
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 1.0
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 1.0
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 1.0
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 1.0
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 1.0
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 1.0
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 1.0
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 1.0
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 1.0
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 1.0
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 1.0
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 1.0
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 1.0
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 1.0
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 1.0
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.71
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.71
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.71
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.71
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.8
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.78
rpsA 1834378 c.837T>G synonymous_variant 1.0
rpsA 1834387 c.846C>T synonymous_variant 1.0
rpsA 1834396 c.855G>T synonymous_variant 1.0
rpsA 1834411 c.870T>C synonymous_variant 1.0
rpsA 1834423 c.882G>C synonymous_variant 1.0
rpsA 1834451 c.910T>C synonymous_variant 1.0
rpsA 1834456 c.915T>G synonymous_variant 1.0
rpsA 1834468 c.927A>G synonymous_variant 1.0
ndh 2102218 c.825C>G synonymous_variant 1.0
ndh 2102233 c.810G>A synonymous_variant 1.0
ndh 2102242 c.801G>C synonymous_variant 1.0
ndh 2102247 p.Val266Ile missense_variant 1.0
ndh 2102248 c.795C>G synonymous_variant 1.0
ndh 2102251 c.792C>A synonymous_variant 1.0
ndh 2102260 c.783C>T synonymous_variant 1.0
katG 2155637 p.Leu159Ile missense_variant 1.0
katG 2155661 p.Val151Leu missense_variant 1.0
katG 2155674 c.438G>C synonymous_variant 1.0
katG 2155680 c.432G>A synonymous_variant 1.0
ald 3087641 c.822T>C synonymous_variant 1.0
ald 3087647 c.828A>G synonymous_variant 1.0
ald 3087649 p.Gly277Asp missense_variant 1.0
ald 3087653 c.834A>G synonymous_variant 1.0
ald 3087665 c.846C>G synonymous_variant 1.0
ald 3087666 p.Tyr283His missense_variant 1.0
ald 3087672 p.His285Asp missense_variant 1.0
ald 3087680 c.861G>C synonymous_variant 1.0
ald 3087684 p.Ala289Asn missense_variant 1.0
ald 3087689 c.870G>C synonymous_variant 1.0
ald 3087699 p.Leu294Val missense_variant 1.0
ald 3087704 c.885T>C synonymous_variant 1.0
ald 3087727 p.Ala303Gly missense_variant 1.0
ald 3087729 p.Ser304Ala missense_variant 1.0
ald 3087738 p.Lys307Arg missense_variant 1.0
ald 3087749 c.930C>G synonymous_variant 1.0
ald 3087751 p.Tyr311Phe missense_variant 1.0
clpC1 4039073 c.1632C>T synonymous_variant 1.0
clpC1 4039082 c.1623C>T synonymous_variant 1.0
clpC1 4039085 c.1620A>G synonymous_variant 1.0
clpC1 4039091 c.1614G>C synonymous_variant 1.0
clpC1 4039097 c.1608G>T synonymous_variant 1.0
clpC1 4039100 c.1605C>G synonymous_variant 1.0
clpC1 4039106 c.1599G>C synonymous_variant 1.0
clpC1 4039119 c.1585_1586delTCinsAG synonymous_variant 1.0
clpC1 4039121 c.1584T>C synonymous_variant 1.0
clpC1 4039145 c.1560G>A synonymous_variant 1.0
clpC1 4039169 c.1536A>G synonymous_variant 1.0
clpC1 4039172 c.1533A>G synonymous_variant 1.0
clpC1 4039178 c.1527G>C synonymous_variant 1.0
embB 4247470 c.957T>C synonymous_variant 1.0
embB 4247491 c.978G>C synonymous_variant 1.0
embB 4247500 c.987C>G synonymous_variant 1.0
embB 4247512 c.999T>C synonymous_variant 1.0
embB 4247519 p.Leu336Val missense_variant 1.0
embB 4247530 c.1017G>C synonymous_variant 1.0
embB 4247537 p.His342Lys missense_variant 1.0
embB 4247542 c.1029C>G synonymous_variant 1.0