TB-Profiler result

Run: SRR22048474
Summary

Run ID: SRR22048474

Sample name:

Date: 04-04-2023 03:52:02

Number of reads: 2237702

Percentage reads mapped: 97.88

Strain: lineage4.8

Drug-resistance: RR-TB

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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
lineage4.8 Euro-American (mainly T) T1;T2;T3;T5 RD219 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
rpoB 761139 p.His445Asn missense_variant 1.0 rifampicin
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 5390 p.Asp51His missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.12
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.11
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.1
rrs 1472973 n.1128A>T non_coding_transcript_exon_variant 0.14
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.14
rrs 1472989 n.1144G>A non_coding_transcript_exon_variant 0.14
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.14
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.14
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474476 n.819C>T non_coding_transcript_exon_variant 0.11
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.11
rrl 1474496 n.839C>A non_coding_transcript_exon_variant 0.11
rrl 1474497 n.840G>C non_coding_transcript_exon_variant 0.11
rrl 1474506 n.849C>G non_coding_transcript_exon_variant 0.12
rrl 1474507 n.850G>T non_coding_transcript_exon_variant 0.12
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.14
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.14
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.14
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.14
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.13
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.13
rrl 1474558 n.901G>A non_coding_transcript_exon_variant 0.21
rrl 1474584 n.927C>T non_coding_transcript_exon_variant 0.23
rrl 1474627 n.970G>A non_coding_transcript_exon_variant 0.11
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.11
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.11
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.11
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.11
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.11
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.1
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.11
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.11
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.21
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.23
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.23
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.23
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.23
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.23
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.28
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.19
rrl 1474932 n.1275C>T non_coding_transcript_exon_variant 0.11
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.25
rrl 1475751 n.2094C>T non_coding_transcript_exon_variant 0.22
rrl 1475752 n.2095C>T non_coding_transcript_exon_variant 0.22
rrl 1475753 n.2096C>G non_coding_transcript_exon_variant 0.22
rrl 1475758 n.2101A>G non_coding_transcript_exon_variant 0.23
rrl 1475775 n.2118G>T non_coding_transcript_exon_variant 0.24
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.23
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.19
rrl 1475883 n.2226A>T non_coding_transcript_exon_variant 0.19
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.19
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.19
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.2
rrl 1475937 n.2280A>T non_coding_transcript_exon_variant 0.18
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.14
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.14
rrl 1475963 n.2306G>T non_coding_transcript_exon_variant 0.14
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.11
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.11
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.11
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.11
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.12
rrl 1475993 n.2336C>T non_coding_transcript_exon_variant 0.12
rrl 1475997 n.2340A>T non_coding_transcript_exon_variant 0.12
rrl 1475998 n.2341C>T non_coding_transcript_exon_variant 0.12
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.12
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.15
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.19
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.21
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.23
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.21
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.14
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fbiD 3339260 p.Thr48Ile missense_variant 1.0
Rv3083 3448497 c.-7T>A upstream_gene_variant 1.0
Rv3083 3448500 c.-4A>G upstream_gene_variant 1.0
Rv3083 3448501 c.-3G>T upstream_gene_variant 1.0
clpC1 4039285 p.Asp474His missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
aftB 4268548 c.289C>T synonymous_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
Rv3083 3448507 c.5_*1408del frameshift_variant&stop_lost&splice_region_variant 1.0