TB-Profiler result

Run: ERR2228874
Summary

Run ID: ERR2228874

Sample name:

Date: 31-03-2023 16:24:12

Number of reads: 119737

Percentage reads mapped: 8.72

Strain: lineage4

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
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 0.71 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 9113 c.1812C>A synonymous_variant 0.25
ccsA 620324 p.Val145Ala missense_variant 0.4
rpoB 760712 c.906G>A synonymous_variant 0.4
rpoC 767017 c.3649delA frameshift_variant 0.4
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 775650 p.Arg944Gln missense_variant 0.67
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303747 p.Thr273Ala missense_variant 1.0
fbiC 1305248 p.Ala773Glu missense_variant 0.33
Rv1258c 1407039 p.Val101Gly missense_variant 0.67
atpE 1460933 c.-112T>C upstream_gene_variant 0.4
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471852 n.7T>A non_coding_transcript_exon_variant 0.43
rrs 1471878 n.33C>T non_coding_transcript_exon_variant 0.64
rrs 1471896 n.51T>C non_coding_transcript_exon_variant 0.57
rrs 1471900 n.55C>T non_coding_transcript_exon_variant 0.57
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.33
rrs 1472101 n.256G>A non_coding_transcript_exon_variant 0.33
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.33
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.62
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.76
rrs 1472122 n.277G>A non_coding_transcript_exon_variant 0.79
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.75
rrs 1472129 n.284G>C non_coding_transcript_exon_variant 0.79
rrs 1472137 n.292G>A non_coding_transcript_exon_variant 0.81
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.82
rrs 1472151 n.306C>T non_coding_transcript_exon_variant 0.82
rrs 1472164 n.319G>A non_coding_transcript_exon_variant 0.84
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.89
rrs 1472177 n.332C>T non_coding_transcript_exon_variant 0.9
rrs 1472203 n.358G>A non_coding_transcript_exon_variant 0.92
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.91
rrs 1472213 n.368G>C non_coding_transcript_exon_variant 0.91
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.94
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.91
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.85
rrs 1472236 n.391C>G non_coding_transcript_exon_variant 0.85
rrs 1472240 n.395G>A non_coding_transcript_exon_variant 0.84
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.76
rrs 1472253 n.408G>T non_coding_transcript_exon_variant 0.71
rrs 1472259 n.414C>A non_coding_transcript_exon_variant 0.64
rrs 1472262 n.417C>T non_coding_transcript_exon_variant 0.5
rrs 1472269 n.424G>A non_coding_transcript_exon_variant 0.29
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.5
rrs 1472378 n.533G>T non_coding_transcript_exon_variant 0.36
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.4
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.44
rrs 1472389 n.544G>A non_coding_transcript_exon_variant 0.44
rrs 1472399 n.554A>T non_coding_transcript_exon_variant 0.33
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.33
rrs 1472415 n.570T>G non_coding_transcript_exon_variant 0.4
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.44
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.76
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.72
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.68
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.5
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.73
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.67
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.67
rrs 1472573 n.728C>T non_coding_transcript_exon_variant 0.68
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.7
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.72
rrs 1472596 n.751G>T non_coding_transcript_exon_variant 0.74
rrs 1472598 n.753A>T non_coding_transcript_exon_variant 0.74
rrs 1472614 n.769G>T non_coding_transcript_exon_variant 0.77
rrs 1472616 n.771G>A non_coding_transcript_exon_variant 0.73
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.74
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.56
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.56
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.54
rrs 1472669 n.824_825insTAGG non_coding_transcript_exon_variant 0.67
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.61
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.64
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.73
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.73
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.59
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.62
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.62
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.42
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.37
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.4
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.36
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.29
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.2
rrs 1473191 n.1346C>T non_coding_transcript_exon_variant 0.42
rrs 1473206 n.1361G>A non_coding_transcript_exon_variant 0.45
rrs 1473226 n.1381C>T non_coding_transcript_exon_variant 0.71
rrs 1473248 n.1403G>A non_coding_transcript_exon_variant 0.67
rrs 1473249 n.1404T>C non_coding_transcript_exon_variant 0.67
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.6
rrs 1473255 n.1410A>G non_coding_transcript_exon_variant 0.6
rrs 1473259 n.1414C>T non_coding_transcript_exon_variant 0.55
rrs 1473260 n.1415G>T non_coding_transcript_exon_variant 0.55
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.55
rrs 1473281 n.1436C>A non_coding_transcript_exon_variant 0.45
rrs 1473282 n.1437C>G non_coding_transcript_exon_variant 0.45
rrs 1473288 n.1443C>A non_coding_transcript_exon_variant 0.45
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.45
rrs 1473291 n.1446G>T non_coding_transcript_exon_variant 0.45
rrs 1473296 n.1451G>C non_coding_transcript_exon_variant 0.45
rrs 1473297 n.1452G>T non_coding_transcript_exon_variant 0.45
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.45
rrs 1473327 n.1482A>G non_coding_transcript_exon_variant 0.45
rrs 1473328 n.1483C>T non_coding_transcript_exon_variant 0.45
rrs 1473352 n.1507C>T non_coding_transcript_exon_variant 0.75
rrl 1473855 n.198A>T non_coding_transcript_exon_variant 0.67
rrl 1474001 n.344C>T non_coding_transcript_exon_variant 1.0
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.89
rrl 1474236 n.579G>A non_coding_transcript_exon_variant 0.7
rrl 1474252 n.595T>A non_coding_transcript_exon_variant 0.67
rrl 1474255 n.598C>T non_coding_transcript_exon_variant 0.6
rrl 1474839 n.1182C>T non_coding_transcript_exon_variant 0.5
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.57
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.44
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.44
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.44
rrl 1474892 n.1235G>A non_coding_transcript_exon_variant 0.29
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.29
rrl 1475574 n.1917C>A non_coding_transcript_exon_variant 0.5
rrl 1475713 n.2056C>G non_coding_transcript_exon_variant 0.5
rrl 1475716 n.2059A>G non_coding_transcript_exon_variant 0.5
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.7
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.7
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.58
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.58
rrl 1475858 n.2201T>C non_coding_transcript_exon_variant 0.5
rrl 1475866 n.2209T>A non_coding_transcript_exon_variant 0.4
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.81
rrl 1476229 n.2572C>T non_coding_transcript_exon_variant 0.86
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.88
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.8
rrl 1476268 n.2611A>T non_coding_transcript_exon_variant 0.81
rrl 1476275 n.2618T>A non_coding_transcript_exon_variant 0.79
rrl 1476279 n.2622G>A non_coding_transcript_exon_variant 0.79
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.79
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.78
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.78
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.78
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.78
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.78
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.78
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.77
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.78
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.78
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.78
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.88
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.87
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.92
rrl 1476369 n.2712C>T non_coding_transcript_exon_variant 0.85
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.86
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.84
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.84
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.84
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.84
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.83
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.86
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.84
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.78
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.72
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.68
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.61
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.61
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.56
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.59
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.63
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.63
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.63
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.63
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.63
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.7
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.73
rrl 1476572 n.2915G>A non_coding_transcript_exon_variant 0.72
rrl 1476573 n.2916A>T non_coding_transcript_exon_variant 0.72
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.71
rrl 1476595 n.2938C>G non_coding_transcript_exon_variant 0.29
inhA 1674679 p.Trp160Arg missense_variant 0.4
rpsA 1834223 p.Leu228Phe missense_variant 0.67
rpsA 1834386 p.Asp282Ala missense_variant 0.67
tlyA 1917759 c.-181A>C upstream_gene_variant 0.5
tlyA 1917972 c.33A>G synonymous_variant 1.0
tlyA 1918016 p.Leu26* stop_gained 0.4
tlyA 1918134 c.195C>A synonymous_variant 0.5
ndh 2102504 p.Pro180His missense_variant 0.67
PPE35 2167695 p.Ile973Thr missense_variant 0.67
PPE35 2168728 p.Gly629Arg missense_variant 1.0
PPE35 2169914 c.699C>T synonymous_variant 0.67
PPE35 2170169 c.444A>T synonymous_variant 0.29
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
pncA 2288797 p.Asn149Tyr missense_variant 0.33
eis 2715413 c.-81G>A upstream_gene_variant 0.33
folC 2746876 c.723C>A synonymous_variant 0.67
Rv2752c 3066163 p.Pro10His missense_variant 0.4
Rv2752c 3066173 p.Pro7Thr missense_variant 0.4
Rv2752c 3066210 c.-19G>T upstream_gene_variant 0.33
ald 3087056 c.237G>A synonymous_variant 0.4
Rv3236c 3612562 p.Met185Ile missense_variant 0.4
alr 3841216 p.Gly69Ser missense_variant 0.33
rpoA 3877752 c.756C>T synonymous_variant 0.4
rpoA 3878490 c.18C>G synonymous_variant 0.4
clpC1 4040813 c.-109A>C upstream_gene_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244976 p.Gly582Trp missense_variant 0.29
embB 4246400 c.-114G>T upstream_gene_variant 1.0
embB 4248245 p.Ile578Phe missense_variant 0.5
embB 4248510 p.Ile666Ser missense_variant 0.29
embB 4248520 p.Ser669Arg missense_variant 0.25
embB 4249729 c.3216T>C synonymous_variant 0.5
embB 4249754 p.Gly1081Ser missense_variant 0.5
ethR 4326565 c.-984C>A upstream_gene_variant 0.22
whiB6 4338184 p.Ala113Val missense_variant 0.67
whiB6 4338266 c.256C>A synonymous_variant 0.5
whiB6 4338595 c.-75delG upstream_gene_variant 1.0