TB-Profiler result

Run: ERR2179802
Summary

Run ID: ERR2179802

Sample name:

Date: 19-10-2023 22:09:23

Number of reads: NA

Percentage reads mapped: NA

Strain: lineage4.5

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
lineage4.5 Euro-American H;T RD122 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
thyA 3052058 c.-3673_*21621del transcript_ablation 0.91 para-aminosalicylic_acid
thyA 3073426 c.-15519_*253del transcript_ablation 0.95 para-aminosalicylic_acid
gid 4391404 c.-1891_*16123del transcript_ablation 0.91 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 7892 c.591G>A synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
ccsA 620029 c.139C>T synonymous_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 801071 p.Asp88Ala missense_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103140 c.-98G>A upstream_gene_variant 1.0
PPE35 2170568 p.Ile15Met missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fbiB 3641684 c.150C>T synonymous_variant 1.0
rpoA 3878575 c.-68C>T upstream_gene_variant 1.0
clpC1 4038318 p.Pro796Leu missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
fbiC 1297532 c.-5398_*4622del transcript_ablation 0.91
rpsA 1820964 c.-12577_*3996del transcript_ablation 0.92
tlyA 1883244 c.-34695_*9469del transcript_ablation 0.92
tlyA 1903748 c.-14191_*27235del transcript_ablation 0.94
tlyA 1904125 c.-13814_*14175del transcript_ablation 0.93
PPE35 2166655 c.1242_*993del frameshift_variant&stop_lost&splice_region_variant 0.92
kasA 2475628 c.-42486_518del frameshift_variant 0.92
kasA 2514783 c.-3331_*20048del transcript_ablation 0.91
folC 2746469 c.-33165_1129del frameshift_variant&start_lost 0.94
ribD 2966645 c.-20193_*15062del transcript_ablation 0.94
fbiD 3317774 c.-21343_*21671del transcript_ablation 0.92
fbiD 3330476 c.-8641_*32906del transcript_ablation 0.94
Rv3083 3444364 c.-4139_*7441del transcript_ablation 0.93
fprA 3466983 c.-7023_*35181del transcript_ablation 0.9
fprA 3473894 c.-112_*9855del transcript_ablation 0.9
whiB7 3567522 c.-31809_*878del transcript_ablation 0.93
Rv3236c 3600772 c.-15773_*11186del transcript_ablation 0.93
Rv3236c 3604228 c.-28272_*7730del transcript_ablation 0.95
Rv3236c 3610290 c.-18426_*1668del transcript_ablation 0.92
Rv3236c 3611509 c.-5065_*449del transcript_ablation 0.95
fbiA 3629330 c.-11212_*25330del transcript_ablation 0.95
alr 3841257 c.-26648_163del frameshift_variant 0.92
rpoA 3848299 c.-3686_*29164del transcript_ablation 0.94
rpoA 3868357 c.-18010_*9106del transcript_ablation 0.91
ddn 3970318 c.-16525_*10640del transcript_ablation 0.95
clpC1 4011760 c.-8684_*26397del transcript_ablation 0.94
embC 4219144 c.-20718_*2497del transcript_ablation 0.94
embC 4221939 c.-17923_*25026del transcript_ablation 0.96
embC 4222228 c.-17634_2952del start_lost&conservative_inframe_deletion 0.92
embA 4240512 c.-2720_*530del transcript_ablation 0.95
embB 4244276 c.-2237_663del start_lost&conservative_inframe_deletion 0.97
aftB 4256570 c.-28709_*10382del transcript_ablation 0.94