TB-Profiler result

Run: SRR2101647
Summary

Run ID: SRR2101647

Sample name:

Date: 03-04-2023 23:50:10

Number of reads: 372965

Percentage reads mapped: 95.26

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
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7849 p.Val183Ala missense_variant 0.1
mshA 575946 p.Thr200Met missense_variant 0.12
rpoB 761152 p.Leu449Gln missense_variant 0.11
rpoB 762159 p.Arg785Ser missense_variant 0.15
rpoC 765763 c.2394G>C synonymous_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpS5 778765 p.Asp47Glu missense_variant 0.11
rpsL 781395 c.-165T>C upstream_gene_variant 0.96
Rv1258c 1406318 c.1023A>T synonymous_variant 0.14
embR 1416477 p.Tyr291His missense_variant 0.14
atpE 1461271 p.Phe76Tyr missense_variant 0.15
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.11
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.12
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.13
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.12
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.15
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.12
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.12
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.12
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.27
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.22
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.17
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.16
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.16
rrs 1472669 n.824_825insTAGA non_coding_transcript_exon_variant 0.18
rrs 1472678 n.833T>G non_coding_transcript_exon_variant 0.19
rrs 1472679 n.834T>C non_coding_transcript_exon_variant 0.19
rrs 1472682 n.839_843delGGGAT non_coding_transcript_exon_variant 0.19
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.18
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.19
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.17
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.19
rrs 1472701 n.856T>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 0.21
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.24
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.23
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.24
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.17
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.11
rrs 1472974 n.1129A>C non_coding_transcript_exon_variant 0.11
rrs 1472975 n.1130T>A non_coding_transcript_exon_variant 0.14
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.1
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.1
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.1
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.1
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.11
rrs 1473080 n.1235C>G non_coding_transcript_exon_variant 0.11
rrs 1473082 n.1237G>A non_coding_transcript_exon_variant 0.11
rrs 1473084 n.1239T>A non_coding_transcript_exon_variant 0.11
rrs 1473094 n.1249T>A non_coding_transcript_exon_variant 0.12
rrl 1475639 n.1982C>T non_coding_transcript_exon_variant 0.12
rrl 1475810 n.2154delA non_coding_transcript_exon_variant 0.18
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.14
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.17
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.2
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.17
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.1
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.1
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.17
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.19
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.22
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.2
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.17
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.16
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.22
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.16
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.16
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.16
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.15
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.14
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.13
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.13
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.13
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.13
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.13
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.13
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.13
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.13
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.13
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.12
rrl 1476567 n.2910C>T 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 0.13
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.13
rpsA 1834370 p.Lys277Glu missense_variant 0.11
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918434 c.495C>A synonymous_variant 0.13
ndh 2102067 p.Val326Met missense_variant 0.11
ndh 2102267 p.Val259Ala missense_variant 0.11
ndh 2103108 c.-66G>T upstream_gene_variant 0.12
ndh 2103219 c.-177G>A upstream_gene_variant 0.22
katG 2156322 c.-211C>A upstream_gene_variant 0.11
PPE35 2169043 p.Val524Met missense_variant 0.12
PPE35 2169402 p.Thr404Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2289990 c.-749A>G upstream_gene_variant 0.17
eis 2714531 p.Ile268Val missense_variant 0.11
folC 2746874 p.Met242Thr missense_variant 0.13
folC 2746942 c.657C>T synonymous_variant 0.13
pepQ 2860245 c.173delG frameshift_variant 0.13
Rv2752c 3064827 c.1365C>T synonymous_variant 0.1
thyX 3067607 c.339C>T synonymous_variant 0.2
thyA 3074618 c.-147T>A upstream_gene_variant 0.18
Rv3083 3449232 c.729C>A synonymous_variant 0.11
fprA 3474142 c.141delG frameshift_variant 0.13
fprA 3475266 c.1260G>A synonymous_variant 0.22
fbiB 3641905 p.Asp124Gly missense_variant 0.15
fbiB 3641990 p.Met152Ile missense_variant 0.15
alr 3840251 c.1170G>C synonymous_variant 0.13
alr 3840643 p.Leu260Ile missense_variant 0.11
panD 4044041 p.Pro81Thr missense_variant 0.15
embC 4240100 p.Thr80Ala missense_variant 0.12
embA 4242946 c.-287T>C upstream_gene_variant 0.11
embA 4244184 p.Ser318Arg missense_variant 0.11
embB 4248203 p.Pro564Thr missense_variant 0.12
embB 4248526 c.2013C>T synonymous_variant 0.15
embB 4248609 p.Ile699Thr missense_variant 0.2
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407916 p.Arg96His missense_variant 1.0
gid 4408387 c.-185A>G upstream_gene_variant 0.1