TB-Profiler result

Run: ERR176675
Summary

Run ID: ERR176675

Sample name:

Date: 31-03-2023 15:09:30

Number of reads: 2934919

Percentage reads mapped: 88.89

Strain: lineage4.3.4.2.1

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
lineage4.3 Euro-American (LAM) mainly-LAM None 1.0
lineage4.3.4 Euro-American (LAM) LAM RD174 1.0
lineage4.3.4.2 Euro-American (LAM) LAM1;LAM4;LAM11 RD174 0.98
lineage4.3.4.2.1 Euro-American (LAM) LAM11 RD174 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 6140 p.Val301Leu missense_variant 0.95
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 490751 c.-32T>G upstream_gene_variant 0.25
ccsA 620748 c.858T>C synonymous_variant 0.13
ccsA 620778 c.888T>C synonymous_variant 0.14
ccsA 620781 c.891C>G synonymous_variant 0.14
ccsA 620783 p.Ala298Val missense_variant 0.14
ccsA 620787 c.897C>A synonymous_variant 0.14
ccsA 620796 c.906C>G synonymous_variant 0.14
rpoB 760646 c.840C>G synonymous_variant 0.13
rpoB 760649 c.843G>C synonymous_variant 0.13
rpoB 760655 c.849A>G synonymous_variant 0.12
rpoB 760793 c.987A>G synonymous_variant 0.12
rpoB 760820 c.1014T>C synonymous_variant 0.12
rpoB 760826 c.1020C>G synonymous_variant 0.12
rpoB 760830 c.1024T>C synonymous_variant 0.12
rpoB 760946 c.1140A>G synonymous_variant 0.13
rpoB 760973 c.1167G>C synonymous_variant 0.15
rpoB 760982 c.1176G>T synonymous_variant 0.14
rpoB 760985 c.1179G>T synonymous_variant 0.14
rpoB 760991 c.1185G>T synonymous_variant 0.13
rpoB 761006 c.1200C>T synonymous_variant 0.18
rpoB 761015 c.1209G>C synonymous_variant 0.16
rpoB 761021 c.1215G>C synonymous_variant 0.2
rpoB 761027 c.1221A>G synonymous_variant 0.21
rpoB 761036 c.1230G>C synonymous_variant 0.17
rpoB 761037 c.1231T>C synonymous_variant 0.17
rpoB 761051 c.1245G>T synonymous_variant 0.16
rpoB 761057 c.1251G>C synonymous_variant 0.15
rpoB 761060 c.1254C>G synonymous_variant 0.15
rpoB 761063 c.1257C>G synonymous_variant 0.15
rpoB 761096 c.1290G>C synonymous_variant 0.16
rpoB 761097 c.1291_1293delAGCinsTCG synonymous_variant 0.14
rpoB 761102 c.1296A>G synonymous_variant 0.14
rpoB 761189 c.1383T>G synonymous_variant 0.13
rpoB 761240 c.1434C>T synonymous_variant 0.12
rpoB 761435 c.1629T>C synonymous_variant 0.15
rpoB 761438 c.1632G>C synonymous_variant 0.15
rpoB 761444 c.1638T>C synonymous_variant 0.15
rpoB 761452 p.Val549Asp missense_variant 0.13
rpoB 761457 p.Pro551Ser missense_variant 0.13
rpoB 761465 c.1659G>A synonymous_variant 0.16
rpoB 761471 c.1665C>T synonymous_variant 0.17
rpoB 761477 c.1671C>T synonymous_variant 0.18
rpoB 761492 c.1686G>C synonymous_variant 0.16
rpoB 761495 c.1689G>A synonymous_variant 0.16
rpoB 761504 c.1698C>G synonymous_variant 0.17
rpoB 761510 c.1704T>C synonymous_variant 0.18
rpoB 761531 c.1725C>G synonymous_variant 0.13
rpoB 761558 c.1752C>G synonymous_variant 0.13
rpoB 761570 c.1764T>C synonymous_variant 0.11
rpoB 761573 c.1767C>G synonymous_variant 0.12
rpoB 761579 c.1773G>C synonymous_variant 0.13
rpoB 761636 c.1830G>T synonymous_variant 0.13
rpoB 762008 c.2202C>G synonymous_variant 0.16
rpoB 762014 c.2208C>T synonymous_variant 0.18
rpoB 762047 c.2241G>A synonymous_variant 0.13
rpoB 762053 c.2247T>C synonymous_variant 0.16
rpoB 762062 c.2256T>C synonymous_variant 0.15
rpoB 762065 c.2259T>C synonymous_variant 0.15
rpoB 762266 c.2460T>C synonymous_variant 0.12
rpoB 762284 c.2478G>C synonymous_variant 0.12
rpoB 762369 c.2563T>C synonymous_variant 0.12
rpoC 763726 c.357C>T synonymous_variant 0.12
rpoC 763732 c.363C>G synonymous_variant 0.12
rpoC 763741 c.372C>T synonymous_variant 0.13
rpoC 763744 c.375G>C synonymous_variant 0.13
rpoC 763765 c.396T>G synonymous_variant 0.12
rpoC 763771 c.402C>T synonymous_variant 0.13
rpoC 763780 c.411C>G synonymous_variant 0.11
rpoC 764995 c.1626C>G synonymous_variant 0.96
rpoC 765934 c.2565C>T synonymous_variant 0.14
rpoC 766309 c.2940G>A synonymous_variant 0.13
rpoC 766315 c.2946C>G synonymous_variant 0.13
rpoC 766321 c.2952C>G synonymous_variant 0.12
rpoC 766348 c.2979A>G synonymous_variant 0.13
rpoC 766369 c.3000C>G synonymous_variant 0.14
rpoC 766456 c.3087C>G synonymous_variant 0.13
rpoC 766996 c.3627C>G synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303674 c.744C>G synonymous_variant 0.12
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rpsA 1833613 c.72C>A synonymous_variant 0.16
rpsA 1833619 c.78A>C synonymous_variant 0.16
rpsA 1833661 c.120A>G synonymous_variant 0.15
rpsA 1833667 c.126C>G synonymous_variant 0.15
rpsA 1833703 c.162C>T synonymous_variant 0.14
rpsA 1833724 c.183C>G synonymous_variant 0.13
rpsA 1833727 c.186G>C synonymous_variant 0.13
rpsA 1833745 c.204G>C synonymous_variant 0.14
rpsA 1833760 c.219C>T synonymous_variant 0.14
rpsA 1833790 c.249T>C synonymous_variant 0.14
rpsA 1833832 c.291G>A synonymous_variant 0.14
rpsA 1833838 c.297G>C synonymous_variant 0.12
rpsA 1833841 c.300C>G synonymous_variant 0.12
rpsA 1833859 c.318C>T synonymous_variant 0.13
rpsA 1833874 c.333T>C synonymous_variant 0.13
rpsA 1833895 c.354G>C synonymous_variant 0.15
rpsA 1833928 c.387G>C synonymous_variant 0.12
rpsA 1833949 c.408T>C synonymous_variant 0.12
rpsA 1834231 c.690T>G synonymous_variant 0.13
rpsA 1834249 c.708T>C synonymous_variant 0.18
rpsA 1834261 c.720A>G synonymous_variant 0.22
rpsA 1834264 c.723G>C synonymous_variant 0.21
rpsA 1834297 c.756C>T synonymous_variant 0.21
rpsA 1834303 c.762T>G synonymous_variant 0.19
rpsA 1834306 c.765T>C synonymous_variant 0.19
rpsA 1834336 c.795C>G synonymous_variant 0.21
rpsA 1834348 c.807T>C synonymous_variant 0.18
rpsA 1834366 c.825A>G synonymous_variant 0.12
rpsA 1834423 c.882G>T synonymous_variant 0.16
rpsA 1834451 c.910T>C synonymous_variant 0.15
rpsA 1834456 c.915T>G synonymous_variant 0.16
rpsA 1834465 c.924T>C synonymous_variant 0.15
rpsA 1834468 c.927A>G synonymous_variant 0.14
rpsA 1834477 c.936C>T synonymous_variant 0.16
rpsA 1834489 c.948T>C synonymous_variant 0.12
rpsA 1834519 c.978G>C synonymous_variant 0.13
rpsA 1834546 c.1005T>C synonymous_variant 0.2
rpsA 1834555 c.1014T>G synonymous_variant 0.19
rpsA 1834603 c.1062G>A synonymous_variant 0.2
rpsA 1834609 c.1068T>C synonymous_variant 0.21
rpsA 1834612 c.1071G>A synonymous_variant 0.21
rpsA 1834633 c.1092A>G synonymous_variant 0.16
rpsA 1834639 c.1098T>C synonymous_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
thyA 3073868 p.Thr202Ala missense_variant 0.95
ald 3086788 c.-32T>C upstream_gene_variant 0.99
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612009 p.Ala370Thr missense_variant 1.0
alr 3840719 c.702A>G synonymous_variant 1.0
rpoA 3877557 c.951C>G synonymous_variant 0.12
rpoA 3877587 c.921A>C synonymous_variant 0.12
rpoA 3877900 p.Ser203Thr missense_variant 0.12
rpoA 3877920 c.588G>C synonymous_variant 0.12
rpoA 3878061 c.447G>C synonymous_variant 0.13
rpoA 3878067 c.441C>G synonymous_variant 0.12
rpoA 3878070 c.438T>C synonymous_variant 0.12
rpoA 3878094 c.414C>G synonymous_variant 0.14
rpoA 3878415 c.93C>T synonymous_variant 0.14
rpoA 3878418 c.90C>T synonymous_variant 0.14
ddn 3986648 c.-196C>G upstream_gene_variant 0.15
clpC1 4038287 c.2418C>T synonymous_variant 1.0
clpC1 4038425 c.2280C>A synonymous_variant 0.15
clpC1 4038444 p.Ala754Lys missense_variant 0.18
clpC1 4038446 c.2259T>C synonymous_variant 0.19
clpC1 4038456 p.Val750Glu missense_variant 0.23
clpC1 4038486 p.Gly740Asn missense_variant 0.19
clpC1 4038491 c.2214C>T synonymous_variant 0.19
clpC1 4038502 p.Ile735Val missense_variant 0.24
clpC1 4038508 c.2197C>T synonymous_variant 0.25
clpC1 4038518 c.2187G>T synonymous_variant 0.22
clpC1 4038530 p.Glu725Asp missense_variant 0.19
clpC1 4038537 p.Thr723Ser missense_variant 0.18
clpC1 4038539 c.2166G>C synonymous_variant 0.18
clpC1 4038569 c.2136C>T synonymous_variant 0.15
clpC1 4038575 c.2130C>G synonymous_variant 0.15
clpC1 4038857 c.1848C>A synonymous_variant 0.23
clpC1 4038875 c.1830C>G synonymous_variant 0.11
clpC1 4038956 c.1749T>C synonymous_variant 0.12
clpC1 4038965 c.1740T>C synonymous_variant 0.15
clpC1 4038971 c.1734T>C synonymous_variant 0.16
clpC1 4038974 c.1731T>C synonymous_variant 0.16
clpC1 4038989 c.1716T>C synonymous_variant 0.15
clpC1 4038997 c.1708T>C synonymous_variant 0.2
clpC1 4039004 c.1701C>G synonymous_variant 0.18
clpC1 4039022 c.1683A>G synonymous_variant 0.2
clpC1 4039025 c.1680C>G synonymous_variant 0.19
clpC1 4039067 c.1638G>C synonymous_variant 0.15
clpC1 4039085 c.1620A>G synonymous_variant 0.16
clpC1 4039097 c.1608G>C synonymous_variant 0.12
clpC1 4039339 p.Thr456Pro missense_variant 0.12
clpC1 4039361 c.1344C>A synonymous_variant 0.14
clpC1 4039430 c.1275T>C synonymous_variant 0.15
clpC1 4039442 c.1263A>G synonymous_variant 0.12
clpC1 4039484 c.1221T>G synonymous_variant 0.35
clpC1 4039694 c.1011G>C synonymous_variant 0.13
clpC1 4040000 c.705C>T synonymous_variant 0.17
clpC1 4040021 c.684A>C synonymous_variant 0.15
clpC1 4040024 c.681A>G synonymous_variant 0.12
clpC1 4040033 c.672G>C synonymous_variant 0.14
clpC1 4040057 c.648C>T synonymous_variant 0.14
clpC1 4040309 c.396C>T synonymous_variant 0.13
panD 4044225 c.57C>T synonymous_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408156 p.Leu16Arg missense_variant 0.99