TB-Profiler result

Run: SRR10482944
Summary

Run ID: SRR10482944

Sample name:

Date: 02-04-2023 17:45:17

Number of reads: 2726822

Percentage reads mapped: 77.91

Strain: La1.8.1

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
La1.8 M.bovis None None 1.0
La1.8.1 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 9217 p.Asp639Ala missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 576108 p.Ala254Gly missense_variant 0.25
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
fbiC 1302899 c.-32A>G upstream_gene_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.22
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.23
rrs 1472518 n.673G>C non_coding_transcript_exon_variant 0.23
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.24
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.24
rrs 1472541 n.696T>G non_coding_transcript_exon_variant 0.24
rrs 1472544 n.699C>G non_coding_transcript_exon_variant 0.25
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.27
rrs 1472557 n.712G>A non_coding_transcript_exon_variant 0.36
rrs 1472570 n.725G>A non_coding_transcript_exon_variant 0.35
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.35
rrs 1472579 n.734G>T non_coding_transcript_exon_variant 0.33
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.34
rrs 1472598 n.753A>C non_coding_transcript_exon_variant 0.34
rrs 1472655 n.810G>A non_coding_transcript_exon_variant 0.31
rrs 1472658 n.813G>A non_coding_transcript_exon_variant 0.28
rrs 1472661 n.816A>G non_coding_transcript_exon_variant 0.28
rrs 1472665 n.820G>A non_coding_transcript_exon_variant 0.28
rrs 1472669 n.824_825insTAGA non_coding_transcript_exon_variant 0.3
rrs 1472678 n.833T>G non_coding_transcript_exon_variant 0.31
rrs 1472679 n.834T>C non_coding_transcript_exon_variant 0.31
rrs 1472682 n.839_843delGGGAT non_coding_transcript_exon_variant 0.31
rrs 1472689 n.844C>T non_coding_transcript_exon_variant 0.31
rrs 1472690 n.845C>A non_coding_transcript_exon_variant 0.32
rrs 1472695 n.850C>T non_coding_transcript_exon_variant 0.32
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.34
rrs 1472701 n.856T>A non_coding_transcript_exon_variant 0.34
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.34
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.34
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.31
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.3
rrs 1472744 n.899A>G non_coding_transcript_exon_variant 0.31
rrs 1473068 n.1223A>G non_coding_transcript_exon_variant 0.15
rrs 1473099 n.1254T>A non_coding_transcript_exon_variant 0.17
rrs 1473109 n.1264T>C non_coding_transcript_exon_variant 0.17
rrs 1473115 n.1270G>C non_coding_transcript_exon_variant 0.16
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.17
rrs 1473123 n.1278A>C non_coding_transcript_exon_variant 0.17
rrs 1473127 n.1282G>T non_coding_transcript_exon_variant 0.17
rrs 1473131 n.1286G>T non_coding_transcript_exon_variant 0.18
rrs 1473147 n.1302G>C non_coding_transcript_exon_variant 0.19
rrs 1473148 n.1303G>A non_coding_transcript_exon_variant 0.19
rrl 1474747 n.1090C>A non_coding_transcript_exon_variant 0.12
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.23
rrl 1474782 n.1125G>A non_coding_transcript_exon_variant 0.23
rrl 1474790 n.1133C>T non_coding_transcript_exon_variant 0.22
rrl 1474794 n.1137C>A non_coding_transcript_exon_variant 0.22
rrl 1474797 n.1140_1141insTATA non_coding_transcript_exon_variant 0.23
rrl 1474800 n.1144_1147delGTGC non_coding_transcript_exon_variant 0.25
rrl 1474812 n.1155G>A non_coding_transcript_exon_variant 0.24
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.23
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.24
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.24
rrl 1474831 n.1174A>T non_coding_transcript_exon_variant 0.24
rrl 1474844 n.1187G>T non_coding_transcript_exon_variant 0.24
rrl 1474866 n.1209C>A non_coding_transcript_exon_variant 0.22
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.22
rrl 1474896 n.1239A>G non_coding_transcript_exon_variant 0.13
rrl 1476225 n.2568T>G non_coding_transcript_exon_variant 0.34
rrl 1476251 n.2594T>C non_coding_transcript_exon_variant 0.53
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.53
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.54
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.51
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.53
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.51
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.51
rrl 1476297 n.2640C>T non_coding_transcript_exon_variant 0.52
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.52
rrl 1476302 n.2645G>A non_coding_transcript_exon_variant 0.51
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.51
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.51
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.52
rrl 1476332 n.2675G>C non_coding_transcript_exon_variant 0.55
rrl 1476353 n.2696G>T non_coding_transcript_exon_variant 0.6
rrl 1476358 n.2701T>C non_coding_transcript_exon_variant 0.64
rrl 1476372 n.2715T>C non_coding_transcript_exon_variant 0.6
rrl 1476382 n.2725A>G non_coding_transcript_exon_variant 0.57
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.57
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.53
rrl 1476425 n.2768G>T non_coding_transcript_exon_variant 0.54
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.55
rrl 1476429 n.2772A>C non_coding_transcript_exon_variant 0.56
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.59
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.57
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.46
rrl 1476514 n.2857C>T non_coding_transcript_exon_variant 0.38
rrl 1476519 n.2862C>G non_coding_transcript_exon_variant 0.38
rrl 1476523 n.2866T>C non_coding_transcript_exon_variant 0.37
rrl 1476524 n.2867C>A non_coding_transcript_exon_variant 0.37
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.37
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.37
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.36
rrl 1476537 n.2880A>G non_coding_transcript_exon_variant 0.37
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.36
rrl 1476540 n.2883C>G non_coding_transcript_exon_variant 0.36
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.36
rrl 1476567 n.2910C>T non_coding_transcript_exon_variant 0.32
rrl 1476573 n.2916A>C non_coding_transcript_exon_variant 0.28
rrl 1476577 n.2920T>G non_coding_transcript_exon_variant 0.28
rrl 1476584 n.2927C>T non_coding_transcript_exon_variant 0.25
rrl 1476594 n.2937C>T non_coding_transcript_exon_variant 0.19
rrl 1476596 n.2939C>T non_coding_transcript_exon_variant 0.17
rrl 1476601 n.2944G>A non_coding_transcript_exon_variant 0.16
rrl 1476607 n.2950C>T non_coding_transcript_exon_variant 0.14
rrl 1476614 n.2957A>G non_coding_transcript_exon_variant 0.11
rpsA 1834859 p.Ala440Thr missense_variant 1.0
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102193 p.Arg284Trp missense_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
PPE35 2167926 p.Leu896Ser missense_variant 1.0
PPE35 2168011 p.Ser868Arg missense_variant 1.0
PPE35 2168319 p.Thr765Ile 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
eis 2715125 p.Thr70Ala missense_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
fbiD 3339734 p.Ala206Gly missense_variant 0.81
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 0.97
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 4246529 p.Ser6Arg missense_variant 0.21
embB 4246551 p.Asn13Ser missense_variant 1.0
embB 4246584 p.Arg24Pro missense_variant 0.4
embB 4246864 c.351C>T synonymous_variant 1.0
embB 4247646 p.Glu378Ala missense_variant 1.0
embB 4248324 p.Ala604Gly missense_variant 0.35
aftB 4267858 p.Ile327Val 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