TB-Profiler result

Run: ERR4769561
Summary

Run ID: ERR4769561

Sample name:

Date: 01-04-2023 06:44:30

Number of reads: 1294399

Percentage reads mapped: 93.89

Strain: La1.3

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
La1 M.bovis None None 1.0
La1.3 M.bovis None 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
pncA 2289073 p.His57Asp missense_variant 1.0 pyrazinamide
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
gyrB 5752 c.513G>A synonymous_variant 1.0
gyrA 6406 c.-896C>T upstream_gene_variant 1.0
gyrB 6446 p.Ala403Ser missense_variant 1.0
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 8285 c.984C>T synonymous_variant 1.0
gyrA 9143 c.1842T>C synonymous_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rpsL 781431 c.-129G>A upstream_gene_variant 1.0
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.26
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.22
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.22
rrs 1472669 n.824_825insTAG non_coding_transcript_exon_variant 0.24
rrs 1472677 n.832C>G non_coding_transcript_exon_variant 0.27
rrs 1472678 n.833T>A non_coding_transcript_exon_variant 0.27
rrs 1472679 n.834_835insAC non_coding_transcript_exon_variant 0.27
rrs 1472684 n.841_846delGATCCG non_coding_transcript_exon_variant 0.27
rrs 1472697 n.852T>A non_coding_transcript_exon_variant 0.25
rrs 1472700 n.855C>T non_coding_transcript_exon_variant 0.24
rrs 1472705 n.860G>A non_coding_transcript_exon_variant 0.24
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 1472734 n.889C>T non_coding_transcript_exon_variant 0.25
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.17
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.16
rrs 1472767 n.922G>A non_coding_transcript_exon_variant 0.12
rrs 1472797 n.952A>G non_coding_transcript_exon_variant 0.11
rrs 1472953 n.1108_1109insA non_coding_transcript_exon_variant 0.11
rrs 1472957 n.1112C>T non_coding_transcript_exon_variant 0.11
rrs 1472974 n.1129A>C non_coding_transcript_exon_variant 0.1
rrs 1472975 n.1130T>G non_coding_transcript_exon_variant 0.1
rrs 1472982 n.1137G>C non_coding_transcript_exon_variant 0.1
rrs 1473002 n.1157G>T non_coding_transcript_exon_variant 0.15
rrs 1473004 n.1159T>A non_coding_transcript_exon_variant 0.16
rrs 1473008 n.1163C>A non_coding_transcript_exon_variant 0.16
rrs 1473009 n.1164T>C non_coding_transcript_exon_variant 0.16
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.18
rrs 1473053 n.1208T>A non_coding_transcript_exon_variant 0.26
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.29
rrs 1473062 n.1217T>A non_coding_transcript_exon_variant 0.24
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.25
rrs 1473070 n.1225G>A non_coding_transcript_exon_variant 0.25
rrs 1473089 n.1244A>C non_coding_transcript_exon_variant 0.23
rrs 1473094 n.1249T>A non_coding_transcript_exon_variant 0.24
rrs 1473096 n.1251C>T non_coding_transcript_exon_variant 0.24
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.24
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.23
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.23
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.23
rrs 1473113 n.1268G>A non_coding_transcript_exon_variant 0.23
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.26
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.23
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.23
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.23
rrs 1473150 n.1305T>G non_coding_transcript_exon_variant 0.23
rrs 1473161 n.1316A>C non_coding_transcript_exon_variant 0.22
rrs 1473163 n.1318C>T non_coding_transcript_exon_variant 0.22
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.22
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.22
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.23
rrs 1473179 n.1334C>T non_coding_transcript_exon_variant 0.25
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.24
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.17
rrl 1473645 n.-12delT upstream_gene_variant 1.0
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.18
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.18
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.12
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.12
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.12
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.12
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.12
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.12
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.12
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.12
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.12
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.11
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.11
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.11
rrl 1476728 n.3071T>C non_coding_transcript_exon_variant 1.0
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2103173 c.-132delG upstream_gene_variant 1.0
katG 2154724 p.Arg463Leu missense_variant 1.0
katG 2155503 c.609C>T synonymous_variant 1.0
katG 2156025 c.87C>A synonymous_variant 1.0
katG 2156465 c.-354C>T upstream_gene_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168814 c.1798dupA frameshift_variant 1.0
Rv1979c 2222308 p.Asp286Gly missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518132 c.18C>T synonymous_variant 1.0
ald 3086728 c.-92C>T upstream_gene_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087084 c.266delA frameshift_variant 1.0
Rv3083 3448783 p.Val94Ile missense_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
fprA 3474427 p.Val141Ile missense_variant 1.0
fprA 3475159 p.Asn385Asp missense_variant 1.0
rpoA 3878630 c.-124delC upstream_gene_variant 1.0
clpC1 4038403 c.2302T>C synonymous_variant 1.0
embC 4240671 p.Thr270Ile missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4242970 c.-263C>T upstream_gene_variant 1.0
embA 4244220 c.988C>T synonymous_variant 1.0
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
aftB 4267858 p.Ile327Val missense_variant 1.0
ubiA 4269239 p.Ala199Thr missense_variant 1.0
aftB 4269351 c.-515C>T upstream_gene_variant 1.0
ubiA 4269387 p.Glu149Asp missense_variant 1.0
aftB 4269606 c.-770T>C upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0