TB-Profiler result

Run: SRR13837544
Summary

Run ID: SRR13837544

Sample name:

Date: 03-04-2023 09:12:56

Number of reads: 597151

Percentage reads mapped: 96.55

Strain: lineage4.9

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
lineage4.9 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
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 5760 p.Trp174Leu missense_variant 1.0
gyrB 6214 c.975G>C synonymous_variant 0.12
gyrB 6223 c.984G>C synonymous_variant 0.12
gyrB 6242 p.Arg335Ser missense_variant 0.12
gyrB 6298 c.1059C>T synonymous_variant 0.12
gyrA 6319 c.-983G>C upstream_gene_variant 0.14
gyrA 6325 c.-977C>G upstream_gene_variant 0.15
gyrB 6662 p.Phe475Val missense_variant 1.0
gyrA 8111 c.810G>C synonymous_variant 0.12
gyrA 8198 c.897T>C synonymous_variant 0.12
gyrA 8204 c.903C>T synonymous_variant 0.13
gyrA 8207 c.906T>C synonymous_variant 0.13
gyrA 8216 c.915G>A synonymous_variant 0.13
gyrA 8219 c.918T>C synonymous_variant 0.12
rpoB 760087 p.Ser94Phe missense_variant 0.94
rpoB 760223 c.417T>C synonymous_variant 0.12
rpoB 760611 c.805T>C synonymous_variant 0.13
rpoB 760934 c.1128C>T synonymous_variant 0.11
rpoB 760982 c.1176G>C synonymous_variant 0.12
rpoB 760985 c.1179G>C synonymous_variant 0.17
rpoB 760991 c.1185G>C synonymous_variant 0.12
rpoB 761015 c.1209G>C synonymous_variant 0.11
rpoB 761021 c.1215G>C synonymous_variant 0.12
rpoB 761027 c.1221A>G synonymous_variant 0.11
rpoB 761847 p.Cys681Ser missense_variant 0.14
rpoB 761852 c.2046C>G synonymous_variant 0.14
rpoB 761858 c.2052G>C synonymous_variant 0.14
rpoB 761864 c.2058G>C synonymous_variant 0.16
rpoB 761873 c.2067A>G synonymous_variant 0.15
rpoB 761885 c.2079T>C synonymous_variant 0.15
rpoB 761891 c.2085G>C synonymous_variant 0.13
rpoC 764446 c.1077T>C synonymous_variant 0.12
rpoC 764449 c.1080G>C synonymous_variant 0.12
rpoC 764458 c.1089G>C synonymous_variant 0.12
rpoC 764461 c.1092A>G synonymous_variant 0.12
rpoC 764497 c.1128A>G synonymous_variant 0.18
rpoC 764521 c.1152T>C synonymous_variant 0.2
rpoC 764530 c.1161C>G synonymous_variant 0.2
rpoC 764536 c.1167G>C synonymous_variant 0.18
rpoC 764539 c.1170C>G synonymous_variant 0.18
rpoC 764560 c.1191T>C synonymous_variant 0.15
rpoC 764566 c.1197C>G synonymous_variant 0.16
rpoC 764573 c.1204_1206delCTTinsTTG synonymous_variant 0.17
rpoC 764576 c.1207_1208delTCinsAG synonymous_variant 0.16
rpoC 764581 c.1212T>C synonymous_variant 0.2
rpoC 764626 c.1257C>T synonymous_variant 0.13
rpoC 766854 p.Leu1162Gln missense_variant 1.0
mmpL5 778416 p.Pro22Leu missense_variant 1.0
rplC 801126 c.318C>T synonymous_variant 1.0
fbiC 1303755 c.825T>C synonymous_variant 0.11
fbiC 1303854 c.924T>C synonymous_variant 0.16
fbiC 1303860 c.930A>C synonymous_variant 0.16
fbiC 1303881 c.951G>C synonymous_variant 0.19
fbiC 1303884 c.954T>G synonymous_variant 0.19
fbiC 1303911 c.981G>C synonymous_variant 0.17
fbiC 1303914 c.984C>G synonymous_variant 0.17
fbiC 1303920 c.990C>G synonymous_variant 0.15
fbiC 1303923 c.993C>T synonymous_variant 0.15
fbiC 1303929 c.999G>C synonymous_variant 0.15
fbiC 1303947 c.1017T>C synonymous_variant 0.17
fbiC 1303948 p.Gly340Arg missense_variant 0.17
fbiC 1303969 p.Val347Ile missense_variant 0.17
fbiC 1303973 p.Gly348Ala missense_variant 0.16
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.12
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.15
rrl 1475354 n.1697A>T non_coding_transcript_exon_variant 1.0
inhA 1674742 p.Lys181Gln missense_variant 0.12
inhA 1674745 p.Tyr182His missense_variant 0.12
inhA 1674780 c.579T>G synonymous_variant 0.12
inhA 1674786 c.585G>C synonymous_variant 0.12
inhA 1674799 p.Ser200Ala missense_variant 0.12
inhA 1674803 p.Ala201Gly missense_variant 0.12
inhA 1674816 c.615T>C synonymous_variant 0.12
inhA 1674818 p.Ala206Val missense_variant 0.12
inhA 1674828 p.Glu209Asp missense_variant 0.12
inhA 1674829 p.Glu210Gln missense_variant 0.12
inhA 1674836 p.Gly212Ala missense_variant 0.12
inhA 1674839 p.Ala213Glu missense_variant 0.12
inhA 1674855 c.654C>T synonymous_variant 0.11
inhA 1674867 p.Trp222Cys missense_variant 0.88
katG 2154601 p.Gly504Val missense_variant 1.0
Rv1979c 2222910 c.255A>G synonymous_variant 1.0
pepQ 2859714 c.705C>A synonymous_variant 1.0
thyX 3067652 c.294T>C synonymous_variant 0.12
thyX 3067661 c.285C>G synonymous_variant 0.12
thyX 3067682 c.264G>C synonymous_variant 0.14
thyX 3067718 c.228C>G synonymous_variant 0.12
thyX 3067721 c.225T>C synonymous_variant 0.12
thyX 3067724 c.222G>A synonymous_variant 0.12
thyX 3067727 c.219A>C synonymous_variant 0.12
thyX 3067739 c.207T>C synonymous_variant 0.13
thyX 3067742 c.204A>C synonymous_variant 0.14
thyX 3067761 p.Arg62Lys missense_variant 0.15
thyX 3067765 p.Leu61Ile missense_variant 0.15
thyX 3067787 c.159G>A synonymous_variant 0.16
thyX 3067793 c.153T>C synonymous_variant 0.15
thyX 3067799 c.147G>A synonymous_variant 0.14
thyX 3067802 c.144C>G synonymous_variant 0.14
thyX 3067814 c.132T>C synonymous_variant 0.14
thyX 3067826 c.120C>G synonymous_variant 0.12
ald 3087172 p.Glu118Ala missense_variant 1.0
ald 3087905 c.1086G>A synonymous_variant 1.0
fprA 3474249 c.243T>C synonymous_variant 0.12
fprA 3474254 p.Val83Ala missense_variant 0.12
fprA 3474306 c.300G>C synonymous_variant 0.11
fprA 3475069 c.1064dupA frameshift_variant&stop_gained 0.94
Rv3236c 3613280 c.-164G>C upstream_gene_variant 1.0
alr 3841499 c.-79C>T upstream_gene_variant 1.0
rpoA 3878156 p.Val118Met missense_variant 0.96
clpC1 4039085 c.1620A>G synonymous_variant 0.12
clpC1 4039090 c.1615C>T synonymous_variant 0.13
clpC1 4039097 c.1608G>C synonymous_variant 0.12
clpC1 4039113 p.Ala531Asp missense_variant 0.85
embC 4242095 p.Ala745Pro missense_variant 1.0
embB 4247621 c.1108C>T synonymous_variant 0.95
embB 4248097 c.1584C>G synonymous_variant 0.13
embB 4248118 c.1605T>C synonymous_variant 0.12
embB 4248133 c.1620C>G synonymous_variant 0.12
embB 4248142 c.1629T>C synonymous_variant 0.12
embB 4248143 c.1630T>C synonymous_variant 0.12
embB 4248157 c.1644A>G synonymous_variant 0.14
embB 4248206 p.Ser565Gly missense_variant 0.14
embB 4248220 c.1707A>G synonymous_variant 0.17
embB 4248265 c.1752C>T synonymous_variant 0.12
embB 4248266 c.1753C>T synonymous_variant 0.12
embB 4248277 c.1764G>C synonymous_variant 0.12
embB 4248304 c.1791G>T synonymous_variant 0.11
embB 4248343 c.1830G>C synonymous_variant 0.12
embB 4248346 c.1833G>C synonymous_variant 0.12
embB 4248355 c.1842A>G synonymous_variant 0.12
embB 4248358 c.1845C>G synonymous_variant 0.12
embB 4248361 c.1848A>G synonymous_variant 0.12
embB 4248362 p.Ser617Ala missense_variant 0.12
aftB 4269585 c.-749G>A upstream_gene_variant 0.95
ubiA 4269776 p.Ala20Pro missense_variant 1.0
ethA 4328211 c.-739delG upstream_gene_variant 1.0