TB-Profiler result

Run: SRR11342679
Summary

Run ID: SRR11342679

Sample name:

Date: 02-04-2023 20:48:06

Number of reads: 4327707

Percentage reads mapped: 99.39

Strain: lineage4.6.3

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
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.6 Euro-American T;LAM None 1.0
lineage4.6.3 Euro-American T;LAM 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
rrs 1472733 n.888G>A non_coding_transcript_exon_variant 0.18 streptomycin
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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8049 p.Ser250Ala missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.25
ccsA 620072 p.Pro61Leu missense_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 0.99
mmpL5 776987 c.1493delC frameshift_variant 1.0
mmpL5 778053 p.Asp143Gly missense_variant 1.0
mmpS5 778673 p.Pro78Leu missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.12
rrs 1472258 n.413A>G non_coding_transcript_exon_variant 0.11
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.11
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.31
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.22
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.22
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.21
rrs 1472668 n.825_829delGGGTT non_coding_transcript_exon_variant 0.21
rrs 1472675 n.830_831insAGAC non_coding_transcript_exon_variant 0.23
rrs 1472680 n.835C>T non_coding_transcript_exon_variant 0.2
rrs 1472682 n.837T>C non_coding_transcript_exon_variant 0.2
rrs 1472683 n.838T>G non_coding_transcript_exon_variant 0.19
rrs 1472687 n.842A>T non_coding_transcript_exon_variant 0.19
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.19
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.19
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.2
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.2
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.18
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.19
rrs 1472813 n.968A>G non_coding_transcript_exon_variant 0.11
rrl 1474323 n.666C>T non_coding_transcript_exon_variant 0.15
rrl 1474634 n.977T>C non_coding_transcript_exon_variant 0.12
rrl 1474636 n.979A>C non_coding_transcript_exon_variant 0.13
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.13
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.13
rrl 1474640 n.983C>T non_coding_transcript_exon_variant 0.13
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.17
rrl 1474689 n.1032T>A non_coding_transcript_exon_variant 0.11
rrl 1474709 n.1052G>A non_coding_transcript_exon_variant 0.25
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.22
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.18
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.18
rrl 1474760 n.1103A>G non_coding_transcript_exon_variant 0.18
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.18
rrl 1474780 n.1123C>T non_coding_transcript_exon_variant 0.18
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.17
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.2
rrl 1474802 n.1145T>C non_coding_transcript_exon_variant 0.22
rrl 1475524 n.1868delG non_coding_transcript_exon_variant 0.22
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.15
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.12
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.16
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.23
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.23
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.21
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.21
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.15
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.2
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.2
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.12
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.32
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.28
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.19
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.21
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.21
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.23
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.23
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.21
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.19
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.19
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.19
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.17
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.14
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.13
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.13
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
embC 4242185 p.Asp775Asn missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embB 4247028 p.Leu172Arg missense_variant 0.27
aftB 4268573 p.Met88Ile missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0