TB-Profiler result

Run: ERR9786384
Summary

Run ID: ERR9786384

Sample name:

Date: 02-04-2023 12:23:18

Number of reads: 2761345

Percentage reads mapped: 89.76

Strain: lineage4.1.2.1

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.1 Euro-American T;X;H None 0.97
lineage4.1.2 Euro-American T;H None 0.99
lineage4.1.2.1 Euro-American (Haarlem) T1;H1 RD182 0.99
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 7362 p.Glu21Gln missense_variant 1.0
gyrA 7538 c.237G>A synonymous_variant 0.15
gyrA 7547 c.246C>T synonymous_variant 0.15
gyrA 7559 c.258G>C synonymous_variant 0.16
gyrA 7571 c.270G>T synonymous_variant 0.18
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 7587 c.286C>T synonymous_variant 0.18
gyrA 7607 c.306C>G synonymous_variant 0.18
gyrA 7622 c.321C>T synonymous_variant 0.18
gyrA 7628 c.327G>C synonymous_variant 0.18
gyrA 7631 c.330G>C synonymous_variant 0.19
gyrA 7637 c.336C>G synonymous_variant 0.19
gyrA 7652 c.351C>T synonymous_variant 0.19
gyrA 7658 c.357A>T synonymous_variant 0.18
gyrA 7664 c.363T>C synonymous_variant 0.17
gyrA 7670 c.369A>G synonymous_variant 0.17
gyrA 7694 c.393A>G synonymous_variant 0.17
gyrA 7697 c.396C>G synonymous_variant 0.16
gyrA 7710 c.409T>C synonymous_variant 0.17
gyrA 7727 c.426G>T synonymous_variant 0.14
gyrA 7775 c.474C>T synonymous_variant 0.15
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 0.94
mshA 575679 p.Asn111Ser missense_variant 0.92
ccsA 620173 p.Val95Ile missense_variant 0.15
ccsA 620181 c.291G>C synonymous_variant 0.16
ccsA 620198 p.Gln103Leu missense_variant 0.15
ccsA 620249 p.Ser120Cys missense_variant 0.15
ccsA 620256 c.366C>G synonymous_variant 0.16
ccsA 620262 c.372C>G synonymous_variant 0.16
ccsA 620283 c.393T>C synonymous_variant 0.16
ccsA 620284 p.Ala132Pro missense_variant 0.15
ccsA 620288 p.Arg133Gln missense_variant 0.15
ccsA 620307 c.417C>T synonymous_variant 0.15
ccsA 620319 c.429C>T synonymous_variant 0.15
rpoB 760115 c.309C>T synonymous_variant 0.93
rpoB 760223 c.417T>C synonymous_variant 0.16
rpoB 760235 c.429T>C synonymous_variant 0.18
rpoB 760253 c.447T>C synonymous_variant 0.19
rpoB 760283 c.477G>C synonymous_variant 0.2
rpoB 760307 c.501T>C synonymous_variant 0.18
rpoB 760313 c.507G>C synonymous_variant 0.18
rpoB 760331 c.525G>T synonymous_variant 0.15
rpoB 760991 c.1185G>C synonymous_variant 0.16
rpoB 761015 c.1209G>C synonymous_variant 0.17
rpoB 761021 c.1215G>C synonymous_variant 0.16
rpoB 761027 c.1221A>G synonymous_variant 0.16
rpoB 761273 c.1467T>C synonymous_variant 0.16
rpoB 761282 c.1476C>T synonymous_variant 0.17
rpoB 761318 c.1512G>C synonymous_variant 0.18
rpoB 761327 c.1521A>G synonymous_variant 0.19
rpoB 761345 c.1539G>C synonymous_variant 0.2
rpoB 761354 c.1548C>G synonymous_variant 0.21
rpoB 761360 c.1554T>C synonymous_variant 0.22
rpoB 761362 p.Ser519Thr missense_variant 0.22
rpoB 761375 c.1569G>C synonymous_variant 0.21
rpoB 761408 c.1602G>C synonymous_variant 0.19
rpoB 761414 c.1608A>G synonymous_variant 0.2
rpoB 761423 c.1617T>C synonymous_variant 0.21
rpoB 761435 c.1629T>C synonymous_variant 0.21
rpoB 761437 p.Ala544Glu missense_variant 0.21
rpoB 761439 p.Asp545Asn missense_variant 0.21
rpoB 761444 c.1638T>C synonymous_variant 0.21
rpoB 761447 c.1641C>G synonymous_variant 0.21
rpoB 761465 c.1659G>C synonymous_variant 0.21
rpoB 761471 c.1665C>G synonymous_variant 0.2
rpoB 761492 c.1686G>C synonymous_variant 0.19
rpoB 761495 c.1689G>A synonymous_variant 0.19
rpoB 762299 c.2493G>C synonymous_variant 0.16
rpoB 762329 c.2523G>C synonymous_variant 0.16
rpoB 762338 c.2532T>C synonymous_variant 0.17
rpoB 762347 c.2541T>C synonymous_variant 0.17
rpoB 762362 p.Glu852Asp missense_variant 0.16
rpoB 762369 c.2563T>C synonymous_variant 0.16
rpoC 762374 c.-996G>C upstream_gene_variant 0.17
rpoC 762380 c.-990T>G upstream_gene_variant 0.17
rpoC 762395 c.-975G>C upstream_gene_variant 0.17
rpoC 762398 c.-972T>C upstream_gene_variant 0.18
rpoC 762404 c.-966T>C upstream_gene_variant 0.18
rpoC 762410 c.-960T>C upstream_gene_variant 0.19
rpoC 762416 c.-954A>G upstream_gene_variant 0.18
rpoC 762995 c.-375G>T upstream_gene_variant 0.17
rpoC 763070 c.-300T>C upstream_gene_variant 0.17
rpoC 763741 c.372C>T synonymous_variant 0.14
rpoC 763816 c.447C>G synonymous_variant 0.16
rpoC 763835 p.Ala156Met missense_variant 0.16
rpoC 763851 p.Ala161Gly missense_variant 0.16
rpoC 763855 c.486C>T synonymous_variant 0.16
rpoC 763858 c.489A>G synonymous_variant 0.16
rpoC 763963 c.594C>T synonymous_variant 1.0
rpoC 764365 c.996C>T synonymous_variant 0.14
rpoC 764560 c.1191T>C synonymous_variant 0.15
rpoC 764566 c.1197C>G synonymous_variant 0.14
rpoC 765150 p.Gly594Glu missense_variant 1.0
rpoC 765541 c.2172C>G synonymous_variant 0.17
rpoC 765553 c.2184C>T synonymous_variant 0.16
rpoC 765556 c.2187G>C synonymous_variant 0.16
rpoC 765562 c.2193G>C synonymous_variant 0.17
rpoC 765565 c.2196G>C synonymous_variant 0.17
rpoC 765583 c.2214G>T synonymous_variant 0.18
rpoC 765613 p.His748Gln missense_variant 0.18
rpoC 765796 c.2427C>T synonymous_variant 0.13
rpoC 766426 c.3057C>T synonymous_variant 0.14
rpoC 766447 c.3078T>C synonymous_variant 0.15
rpoC 766456 c.3087C>G synonymous_variant 0.16
rpoC 766459 c.3090G>T synonymous_variant 0.16
rpoC 766483 c.3114G>C synonymous_variant 0.16
rpoC 766528 c.3159T>C synonymous_variant 0.15
rpoC 766543 c.3174C>G synonymous_variant 0.16
rpoC 766894 c.3525T>C synonymous_variant 0.17
rpoC 766895 c.3526T>C synonymous_variant 0.17
rpoC 766900 c.3531T>C synonymous_variant 0.17
rpoC 766918 c.3549C>T synonymous_variant 0.16
rpoC 766933 c.3564A>C synonymous_variant 0.17
rpoC 766945 c.3576A>G synonymous_variant 0.17
rpoC 766963 c.3594T>C synonymous_variant 0.18
rpoC 766972 c.3603G>C synonymous_variant 0.18
rpoC 766978 c.3609C>T synonymous_variant 0.18
rpoC 766981 c.3612T>C synonymous_variant 0.18
rpoC 766987 c.3618G>C synonymous_variant 0.17
rpoC 767032 c.3663G>C synonymous_variant 0.21
rpoC 767059 c.3690T>G synonymous_variant 0.18
rpoC 767062 c.3693C>A synonymous_variant 0.18
rpoC 767098 c.3729T>C synonymous_variant 0.17
rpoC 767134 c.3765C>A synonymous_variant 0.14
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304675 p.Gly582Asp missense_variant 0.15
fbiC 1304682 c.1752C>G synonymous_variant 0.17
fbiC 1304691 c.1761G>C synonymous_variant 0.17
fbiC 1304694 c.1764A>G synonymous_variant 0.17
fbiC 1304703 c.1773C>G synonymous_variant 0.17
fbiC 1304709 c.1779C>G synonymous_variant 0.17
fbiC 1304715 c.1785G>C synonymous_variant 0.17
fbiC 1304724 c.1794A>G synonymous_variant 0.18
fbiC 1304727 c.1797A>G synonymous_variant 0.18
fbiC 1304742 c.1812T>G synonymous_variant 0.17
fbiC 1304748 c.1818T>C synonymous_variant 0.16
fbiC 1304757 c.1827A>G synonymous_variant 0.16
fbiC 1304763 c.1833C>G synonymous_variant 0.17
fbiC 1304778 p.Asp616Glu missense_variant 0.18
fbiC 1304784 c.1854T>G synonymous_variant 0.17
fbiC 1304787 c.1857T>C synonymous_variant 0.19
fbiC 1304799 c.1869G>C synonymous_variant 0.19
fbiC 1304808 c.1878C>G synonymous_variant 0.18
fbiC 1304811 c.1881C>G synonymous_variant 0.18
fbiC 1304817 c.1887T>C synonymous_variant 0.2
fbiC 1304826 c.1896G>C synonymous_variant 0.2
fbiC 1304829 c.1899T>C synonymous_variant 0.2
fbiC 1304832 c.1902C>T synonymous_variant 0.19
fbiC 1304853 c.1923C>T synonymous_variant 0.18
fbiC 1304856 c.1926C>G synonymous_variant 0.19
fbiC 1304869 c.1939C>T synonymous_variant 0.16
fbiC 1304910 c.1980G>C synonymous_variant 0.15
fbiC 1304916 c.1986T>C synonymous_variant 0.15
fbiC 1305006 c.2076A>G synonymous_variant 0.16
fbiC 1305015 c.2085G>C synonymous_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrl 1473836 n.179A>G non_coding_transcript_exon_variant 0.16
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.16
rrl 1473898 n.241C>T non_coding_transcript_exon_variant 0.14
rrl 1474030 n.373G>A non_coding_transcript_exon_variant 0.15
rrl 1474717 n.1060A>T non_coding_transcript_exon_variant 0.14
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.14
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.14
rrl 1474831 n.1174A>G non_coding_transcript_exon_variant 0.16
rrl 1474950 n.1293G>A non_coding_transcript_exon_variant 0.16
rrl 1474952 n.1296_1300delCATCC non_coding_transcript_exon_variant 0.17
rrl 1474961 n.1304T>G non_coding_transcript_exon_variant 0.18
rrl 1474962 n.1305T>C non_coding_transcript_exon_variant 0.17
rrl 1474963 n.1306G>A non_coding_transcript_exon_variant 0.18
rrl 1474964 n.1307T>A non_coding_transcript_exon_variant 0.18
rrl 1474967 n.1311_1315delGGGTG non_coding_transcript_exon_variant 0.19
rrl 1474991 n.1334T>C non_coding_transcript_exon_variant 0.22
rrl 1475006 n.1349A>G non_coding_transcript_exon_variant 0.24
rrl 1475017 n.1360_1361insT non_coding_transcript_exon_variant 0.24
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.21
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.19
rrl 1475213 n.1556C>T non_coding_transcript_exon_variant 0.2
rrl 1475252 n.1595C>T non_coding_transcript_exon_variant 0.16
rrl 1475253 n.1596T>G non_coding_transcript_exon_variant 0.16
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 0.16
rrl 1475267 n.1610G>A non_coding_transcript_exon_variant 0.16
rrl 1475273 n.1616T>G non_coding_transcript_exon_variant 0.16
rrl 1475275 n.1618C>T non_coding_transcript_exon_variant 0.16
rrl 1475276 n.1619T>C non_coding_transcript_exon_variant 0.16
rrl 1475289 n.1632G>A non_coding_transcript_exon_variant 0.2
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.2
rrl 1475313 n.1656G>A non_coding_transcript_exon_variant 0.2
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.2
rrl 1475355 n.1698C>T non_coding_transcript_exon_variant 0.18
rrl 1475369 n.1712G>T non_coding_transcript_exon_variant 0.2
rrl 1475419 n.1762C>T non_coding_transcript_exon_variant 0.16
rrl 1475429 n.1772G>A non_coding_transcript_exon_variant 0.14
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.15
rrl 1475883 n.2226A>G non_coding_transcript_exon_variant 0.17
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.15
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.14
inhA 1674443 p.Ala81Val missense_variant 0.14
inhA 1674452 p.Ala84Glu missense_variant 0.16
rpsA 1834030 c.489C>G synonymous_variant 0.15
rpsA 1834609 c.1068T>C synonymous_variant 0.17
rpsA 1834618 c.1077G>A synonymous_variant 0.17
rpsA 1834622 c.1081_1083delTCGinsAGC synonymous_variant 0.17
rpsA 1834633 c.1092A>G synonymous_variant 0.17
rpsA 1834639 c.1098T>C synonymous_variant 0.17
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 0.92
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877887 c.621G>A synonymous_variant 0.14
rpoA 3877962 c.546G>C synonymous_variant 0.16
rpoA 3877974 c.534G>C synonymous_variant 0.15
rpoA 3877986 c.522G>C synonymous_variant 0.16
rpoA 3877989 c.519A>G synonymous_variant 0.16
rpoA 3878001 c.507A>G synonymous_variant 0.17
rpoA 3878019 c.489A>C synonymous_variant 0.18
rpoA 3878022 c.486T>C synonymous_variant 0.17
rpoA 3878028 c.480G>C synonymous_variant 0.17
rpoA 3878031 c.477T>C synonymous_variant 0.17
rpoA 3878040 c.468T>C synonymous_variant 0.17
rpoA 3878046 c.462T>C synonymous_variant 0.17
rpoA 3878055 c.453A>G synonymous_variant 0.18
rpoA 3878145 c.362_363insGT frameshift_variant 0.16
rpoA 3878160 c.348C>G synonymous_variant 0.17
rpoA 3878169 c.339G>C synonymous_variant 0.18
rpoA 3878184 c.324C>T synonymous_variant 0.18
rpoA 3878187 c.321C>G synonymous_variant 0.18
rpoA 3878193 c.315T>C synonymous_variant 0.18
rpoA 3878205 c.303T>C synonymous_variant 0.18
rpoA 3878214 c.294C>T synonymous_variant 0.17
rpoA 3878217 c.291A>G synonymous_variant 0.18
rpoA 3878247 c.261G>C synonymous_variant 0.2
rpoA 3878250 c.258C>G synonymous_variant 0.2
rpoA 3878264 p.Ser82Gly missense_variant 0.19
rpoA 3878271 c.237T>C synonymous_variant 0.21
rpoA 3878283 p.Glu75Asp missense_variant 0.2
rpoA 3878292 c.216T>C synonymous_variant 0.2
rpoA 3878298 c.210A>G synonymous_variant 0.18
rpoA 3878304 c.204G>C synonymous_variant 0.18
rpoA 3878307 c.201C>G synonymous_variant 0.18
rpoA 3878313 c.195G>C synonymous_variant 0.2
rpoA 3878322 c.186A>G synonymous_variant 0.19
rpoA 3878331 c.177A>G synonymous_variant 0.19
rpoA 3878334 c.174T>C synonymous_variant 0.19
rpoA 3878337 c.171T>C synonymous_variant 0.19
rpoA 3878364 c.144A>G synonymous_variant 0.2
rpoA 3878385 c.123C>G synonymous_variant 0.19
rpoA 3878391 c.117T>G synonymous_variant 0.19
rpoA 3878415 c.93C>T synonymous_variant 0.15
clpC1 4038965 c.1740T>C synonymous_variant 0.15
clpC1 4038989 c.1716T>C synonymous_variant 0.15
clpC1 4038997 c.1708T>C synonymous_variant 0.17
clpC1 4039022 c.1683A>G synonymous_variant 0.18
clpC1 4039037 c.1668T>C synonymous_variant 0.18
clpC1 4039073 c.1632C>G synonymous_variant 0.16
clpC1 4039661 c.1044T>G synonymous_variant 0.17
clpC1 4039664 c.1041G>C synonymous_variant 0.17
clpC1 4039694 c.1011G>C synonymous_variant 0.16
clpC1 4039742 c.963C>T synonymous_variant 0.15
embC 4240831 c.969T>G synonymous_variant 0.15
embC 4240936 c.1074A>G synonymous_variant 0.15
embC 4240951 c.1089C>G synonymous_variant 0.16
embC 4240954 p.Ile364Met missense_variant 0.16
embC 4241086 c.1224G>C synonymous_variant 0.14
embC 4241095 c.1233C>T synonymous_variant 0.16
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 0.99
embB 4248199 c.1686A>T synonymous_variant 0.14
embB 4248220 c.1707A>T synonymous_variant 0.15
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407990 c.213A>G synonymous_variant 1.0