TB-Profiler result

Run: ERR4769410
Summary

Run ID: ERR4769410

Sample name:

Date: 01-04-2023 06:39:31

Number of reads: 102723

Percentage reads mapped: 6.09

Strain: lineage4;La1.3

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
La1.3 M.bovis None None 1.0
lineage4 Euro-American LAM;T;S;X;H None 0.87
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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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 6446 p.Ala403Ser missense_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 0.75
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.33
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.2
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.3
rrs 1472682 n.837T>A non_coding_transcript_exon_variant 0.22
rrs 1472683 n.838T>C non_coding_transcript_exon_variant 0.22
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.25
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.25
rrs 1472873 n.1028C>T non_coding_transcript_exon_variant 0.29
rrs 1472875 n.1030T>G non_coding_transcript_exon_variant 0.29
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.29
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.5
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.5
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.33
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.5
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.4
rrl 1474266 n.609T>C non_coding_transcript_exon_variant 0.67
rrl 1474269 n.612C>T non_coding_transcript_exon_variant 0.67
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 1.0
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 1.0
rrl 1474353 n.696A>G non_coding_transcript_exon_variant 1.0
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 1.0
rrl 1474454 n.797G>A non_coding_transcript_exon_variant 0.43
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.33
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.43
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.43
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.43
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.5
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.6
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.6
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.4
rrl 1474803 n.1146G>A non_coding_transcript_exon_variant 0.4
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.4
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.6
rrl 1474824 n.1167A>G non_coding_transcript_exon_variant 0.4
rrl 1474830 n.1173A>G non_coding_transcript_exon_variant 0.5
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.4
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.22
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.22
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.33
rrl 1475896 n.2239A>G non_coding_transcript_exon_variant 0.22
rrl 1475906 n.2249C>T non_coding_transcript_exon_variant 0.2
rrl 1475916 n.2259C>T non_coding_transcript_exon_variant 0.4
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.6
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.75
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.75
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.29
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.25
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 1.0
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 1.0
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.67
rrl 1476585 n.2928A>G non_coding_transcript_exon_variant 0.67
rrl 1476728 n.3071T>C non_coding_transcript_exon_variant 1.0
inhA 1674687 c.486G>C synonymous_variant 1.0
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2156025 c.87C>A synonymous_variant 1.0
katG 2156465 c.-354C>T upstream_gene_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168814 c.1798dupA frameshift_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
Rv3083 3448783 p.Val94Ile missense_variant 1.0
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
clpC1 4038403 c.2302T>C synonymous_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embC 4241384 p.Pro508Thr missense_variant 0.8
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242970 c.-263C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4249640 c.3127T>C synonymous_variant 1.0
aftB 4267858 p.Ile327Val missense_variant 1.0
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0