TB-Profiler result

Run: SRR13837614
Summary

Run ID: SRR13837614

Sample name:

Date: 03-04-2023 09:14:25

Number of reads: 297048

Percentage reads mapped: 97.06

Strain: lineage4.9

Drug-resistance: Sensitive

Download CSV Download TXT Download PDF Download JSON
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
rpoB 760728 p.Tyr308Asn missense_variant 1.0
rpoC 763928 p.Glu187* stop_gained 1.0
rpoC 764203 c.834G>C synonymous_variant 0.33
rpoC 764206 c.837T>C synonymous_variant 0.33
rpoC 764215 c.846A>G synonymous_variant 0.33
rpoC 764236 c.867G>A synonymous_variant 0.43
rpoC 764248 c.879C>G synonymous_variant 0.4
rpoC 764257 c.888G>C synonymous_variant 0.4
rpoC 764266 c.897T>C synonymous_variant 0.33
rpoC 764269 c.900G>C synonymous_variant 0.4
rpoC 764272 c.903G>C synonymous_variant 0.4
rpoC 764278 c.909A>G synonymous_variant 0.4
rpoC 764338 c.969G>A synonymous_variant 0.29
rpoC 765383 p.Met672Leu missense_variant 0.22
rpoC 765404 p.Leu679Val missense_variant 0.22
rpoC 765409 c.2040T>C synonymous_variant 0.2
rpoC 765421 c.2052C>G synonymous_variant 0.22
rpoC 765478 c.2109T>C synonymous_variant 0.18
rpoC 765499 c.2130C>G synonymous_variant 0.18
rpoC 766155 p.Ala929Val missense_variant 1.0
mmpL5 777185 c.1296G>T synonymous_variant 0.86
fbiC 1302932 p.Val1Gly missense_variant 1.0
fbiC 1303151 p.Gly74Asp missense_variant 1.0
fbiC 1304869 c.1939C>T synonymous_variant 0.22
fbiC 1304875 p.Ile649Val missense_variant 0.22
fbiC 1304883 p.Glu651Asp missense_variant 0.2
fbiC 1304891 p.Ile654Thr missense_variant 0.2
fbiC 1304893 p.Gly655Arg missense_variant 0.2
fbiC 1304907 c.1977C>G synonymous_variant 0.18
fbiC 1304910 c.1980G>C synonymous_variant 0.18
fbiC 1304916 c.1986T>C synonymous_variant 0.18
fbiC 1304928 c.1998T>C synonymous_variant 0.18
fbiC 1304937 c.2007G>C synonymous_variant 0.2
fbiC 1304943 c.2013C>A synonymous_variant 0.22
fbiC 1304958 c.2028T>G synonymous_variant 0.29
fbiC 1304983 c.2053C>T synonymous_variant 0.29
fbiC 1304994 c.2064A>G synonymous_variant 0.33
fbiC 1304995 p.Leu689Met missense_variant 0.33
fbiC 1305006 c.2076A>G synonymous_variant 0.33
fbiC 1305012 c.2082G>C synonymous_variant 0.33
fbiC 1305298 p.Lys790Gln missense_variant 1.0
Rv1258c 1406311 c.1030C>T synonymous_variant 1.0
rrl 1475061 n.1404C>T non_coding_transcript_exon_variant 0.25
rrl 1475088 n.1431A>T non_coding_transcript_exon_variant 0.29
rrl 1475199 n.1542G>A non_coding_transcript_exon_variant 0.18
rrl 1475206 n.1549C>T non_coding_transcript_exon_variant 0.2
rrl 1475209 n.1552G>C non_coding_transcript_exon_variant 0.2
rrl 1475213 n.1556C>T non_coding_transcript_exon_variant 0.18
rrl 1475249 n.1592T>C non_coding_transcript_exon_variant 0.17
rrl 1475252 n.1595C>T non_coding_transcript_exon_variant 0.17
rrl 1475266 n.1609T>C non_coding_transcript_exon_variant 0.17
rrl 1475275 n.1618C>T non_coding_transcript_exon_variant 0.18
rrl 1475276 n.1619T>C non_coding_transcript_exon_variant 0.18
rrl 1475291 n.1634A>C non_coding_transcript_exon_variant 0.18
rrl 1475313 n.1656G>A non_coding_transcript_exon_variant 0.3
rrl 1475315 n.1658A>T non_coding_transcript_exon_variant 0.3
rrl 1475369 n.1712G>T non_coding_transcript_exon_variant 0.22
inhA 1673607 c.-595T>C upstream_gene_variant 0.4
rpsA 1834275 p.Ile245Thr missense_variant 1.0
tlyA 1917936 c.-4C>A upstream_gene_variant 1.0
ndh 2101676 p.Ala456Val missense_variant 1.0
pncA 2289356 c.-115G>T upstream_gene_variant 1.0
kasA 2518234 p.Glu40Asp missense_variant 1.0
kasA 2519062 c.948T>G synonymous_variant 0.13
kasA 2519068 c.954C>T synonymous_variant 0.13
kasA 2519072 p.Ala320Thr missense_variant 0.13
Rv2752c 3064837 p.Leu452Trp missense_variant 1.0
thyX 3067570 p.Ala126Pro missense_variant 0.17
thyX 3067577 c.369G>A synonymous_variant 0.17
thyX 3067611 p.Lys112Thr missense_variant 0.15
thyX 3067619 c.327A>C synonymous_variant 0.17
thyX 3067631 c.315C>G synonymous_variant 0.15
thyX 3067634 c.312C>G synonymous_variant 0.17
thyX 3067652 c.294T>C synonymous_variant 0.18
thyX 3067661 c.285C>G synonymous_variant 0.2
thyX 3067685 c.261A>C synonymous_variant 0.14
thyX 3067691 p.Ile85Leu missense_variant 0.15
thyX 3067694 c.252G>C synonymous_variant 0.15
thyA 3074214 c.258T>C synonymous_variant 0.12
thyA 3074262 c.210T>C synonymous_variant 0.12
Rv3083 3449643 p.Asn380Lys missense_variant 1.0
fprA 3474752 p.Ile249Ser missense_variant 1.0
fprA 3475315 p.His437Asn missense_variant 1.0
Rv3236c 3611967 p.Ser384Pro missense_variant 1.0
fbiB 3641645 c.111A>G synonymous_variant 0.13
rpoA 3877756 p.Ile251Thr missense_variant 0.93
rpoA 3878065 p.Pro148Arg missense_variant 1.0
ddn 3986977 p.Pro45Arg missense_variant 1.0
clpC1 4039517 c.1188C>G synonymous_variant 0.13
clpC1 4039559 c.1146C>G synonymous_variant 0.15
clpC1 4039562 c.1143C>G synonymous_variant 0.15
clpC1 4039565 c.1140G>C synonymous_variant 0.15
clpC1 4039570 p.Met379Leu missense_variant 0.17
clpC1 4039576 p.Ala377Pro missense_variant 0.17
clpC1 4039577 c.1128T>C synonymous_variant 0.17
clpC1 4039589 c.1116G>C synonymous_variant 0.21
clpC1 4039610 c.1095G>C synonymous_variant 0.23
clpC1 4039616 c.1089G>C synonymous_variant 0.23
clpC1 4039622 c.1083C>T synonymous_variant 0.25
clpC1 4039664 c.1041G>C synonymous_variant 0.13
clpC1 4039694 c.1011G>C synonymous_variant 0.19
clpC1 4039718 c.987C>A synonymous_variant 0.2
clpC1 4039724 c.981A>G synonymous_variant 0.2
clpC1 4039751 c.954A>G synonymous_variant 0.14
clpC1 4039757 c.948A>G synonymous_variant 0.13
clpC1 4039760 c.945T>C synonymous_variant 0.13
clpC1 4039769 c.936C>G synonymous_variant 0.12
clpC1 4039781 c.924G>C synonymous_variant 0.12
clpC1 4039790 c.915C>G synonymous_variant 0.12
clpC1 4040538 p.Leu56Arg missense_variant 1.0
embC 4242607 p.Met915Ile missense_variant 0.2
embA 4245342 p.Ser704Pro missense_variant 1.0
embB 4248172 c.1659G>C synonymous_variant 0.2
embB 4248199 c.1686A>G synonymous_variant 0.22
embB 4248200 p.Ile563Val missense_variant 0.22
embB 4248205 c.1692C>G synonymous_variant 0.22
embB 4248206 p.Ser565Gly missense_variant 0.22
embB 4248220 c.1707A>C synonymous_variant 0.22
embB 4248711 c.2198_2199insT frameshift_variant 1.0
aftB 4267498 p.Glu447Lys missense_variant 1.0
aftB 4268559 p.Leu93Gln missense_variant 1.0