TB-Profiler result

Run: SRR6389899
Summary

Run ID: SRR6389899

Sample name:

Date: 04-04-2023 13:45:16

Number of reads: 18255234

Percentage reads mapped: 78.41

Strain: lineage4.1.2

Drug-resistance: Other

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
lineage4.1 Euro-American T;X;H None 0.99
lineage4.1.2 Euro-American T;H None 0.99
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 0.64 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 7914 p.Leu205Val missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491591 p.Lys270Met missense_variant 1.0
rpoB 760115 c.309C>T synonymous_variant 0.99
rpoC 764263 c.894G>A synonymous_variant 0.98
rpoC 765150 p.Gly594Glu missense_variant 0.99
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 777320 c.1161C>G synonymous_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1304789 p.Ala620Val missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.32
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.33
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.35
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.37
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.42
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.48
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.46
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.5
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.46
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.45
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.4
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.33
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.3
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.3
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.3
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.18
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.18
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.2
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.19
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.19
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.57
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.59
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.6
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.59
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.58
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.58
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.58
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.58
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.56
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.56
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.16
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.5
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.52
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.63
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.63
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.64
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.6
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.58
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.5
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.25
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.23
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.23
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.26
rrs 1473164 n.1319C>A non_coding_transcript_exon_variant 0.27
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.29
rrs 1473172 n.1327T>C non_coding_transcript_exon_variant 0.27
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.27
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.28
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.33
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.34
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.37
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.13
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.13
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.12
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.18
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.16
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.18
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.16
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.16
rrl 1474892 n.1235G>A non_coding_transcript_exon_variant 0.16
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.14
rrl 1474902 n.1245T>C non_coding_transcript_exon_variant 0.13
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.15
rrl 1474920 n.1263G>C non_coding_transcript_exon_variant 0.13
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.13
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.12
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.16
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.16
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.14
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.12
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.12
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.14
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.49
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.59
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.61
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.68
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.67
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.68
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.68
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.75
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.75
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.76
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.76
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.67
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.63
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.46
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.29
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.27
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.28
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.28
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.27
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.27
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.27
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.27
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.27
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.27
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.28
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.26
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.24
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.25
rpsA 1833521 c.-21T>G upstream_gene_variant 0.99
tlyA 1917972 c.33A>G synonymous_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518076 c.-39C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3611974 c.1143A>C synonymous_variant 0.99
fbiB 3641969 c.435C>T synonymous_variant 0.99
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embC 4242803 p.Val981Leu missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0