TB-Profiler result

Run: ERR773806
Summary

Run ID: ERR773806

Sample name:

Date: 02-04-2023 05:36:49

Number of reads: 850247

Percentage reads mapped: 21.52

Strain: lineage2.2.1

Drug-resistance: Sensitive

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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
lineage2 East-Asian Beijing RD105 1.0
lineage2.2 East-Asian (Beijing) Beijing-RD207 RD105;RD207 1.0
lineage2.2.1 East-Asian (Beijing) Beijing-RD181 RD105;RD207;RD181 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
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 9304 p.Gly668Asp missense_variant 1.0
fgd1 490972 p.Arg64Cys missense_variant 0.12
fgd1 491742 c.960T>C synonymous_variant 1.0
mshA 575907 p.Ala187Val missense_variant 1.0
ccsA 619837 c.-54G>T upstream_gene_variant 0.17
ccsA 620625 p.Ile245Met missense_variant 1.0
rpoC 762863 c.-507T>C upstream_gene_variant 0.38
rpoB 762872 p.Met1022Ile missense_variant 0.44
rpoB 762878 p.Ile1024Met missense_variant 0.46
rpoB 762879 p.Met1025Leu missense_variant 0.46
rpoC 762899 c.-471G>C upstream_gene_variant 0.59
rpoC 762920 c.-450C>T upstream_gene_variant 0.68
rpoC 762923 c.-447C>G upstream_gene_variant 0.68
rpoB 762925 p.Thr1040Ile missense_variant 0.71
rpoC 762929 c.-441G>C upstream_gene_variant 0.71
rpoB 762939 p.Met1045Leu missense_variant 0.69
rpoB 762942 p.Ile1046Val missense_variant 0.69
rpoC 762980 c.-390T>C upstream_gene_variant 0.51
rpoC 762983 c.-387C>T upstream_gene_variant 0.51
rpoC 762989 c.-381G>C upstream_gene_variant 0.52
rpoC 762998 c.-372G>A upstream_gene_variant 0.42
rpoB 763005 p.Cys1067Val missense_variant 0.24
rpoC 763031 c.-339T>C upstream_gene_variant 1.0
rpoC 764070 p.Leu234Pro missense_variant 0.13
rpoC 764338 c.969G>A synonymous_variant 0.25
rpoC 764344 c.975C>T synonymous_variant 0.25
rpoC 764348 p.Met327Leu missense_variant 0.24
rpoC 764355 p.Gln329Pro missense_variant 0.29
rpoC 764359 c.990C>G synonymous_variant 0.29
rpoC 764371 c.1002G>C synonymous_variant 0.2
rpoC 764377 c.1008C>G synonymous_variant 0.23
rpoC 764383 c.1014C>G synonymous_variant 0.14
rpoC 764387 c.1018T>C synonymous_variant 0.13
rpoC 764401 c.1032C>T synonymous_variant 0.13
rpoC 764405 c.1036A>C synonymous_variant 0.22
rpoC 764410 c.1041G>C synonymous_variant 0.38
rpoC 764419 c.1050C>G synonymous_variant 0.47
rpoC 764428 c.1059G>C synonymous_variant 0.47
rpoC 764434 c.1065A>G synonymous_variant 0.49
rpoC 764435 c.1066_1068delAGGinsCGC synonymous_variant 0.49
rpoC 764446 p.Asp359Glu missense_variant 0.51
rpoC 764450 p.Gly361Arg missense_variant 0.51
rpoC 764461 p.Glu364Asp missense_variant 0.53
rpoC 764468 p.Val367Ile missense_variant 0.53
rpoC 764471 p.Asn368Arg missense_variant 0.55
rpoC 764479 c.1110G>A synonymous_variant 0.53
rpoC 764503 c.1134G>C synonymous_variant 0.54
rpoC 764509 c.1140G>C synonymous_variant 0.5
rpoC 764521 c.1152T>C synonymous_variant 0.39
rpoC 764527 c.1158C>T synonymous_variant 0.32
rpoC 764536 c.1167G>C synonymous_variant 0.11
rpoC 764632 c.1263T>C synonymous_variant 0.31
rpoC 764650 c.1281G>T synonymous_variant 0.39
rpoC 764660 p.Val431Thr missense_variant 0.39
rpoC 764665 c.1296C>G synonymous_variant 0.38
rpoC 764671 c.1302G>C synonymous_variant 0.38
rpoC 764672 p.Gln435Glu missense_variant 0.39
rpoC 764677 c.1308C>G synonymous_variant 0.38
rpoC 764687 p.Gln440Glu missense_variant 0.38
rpoC 764695 c.1326T>C synonymous_variant 0.41
rpoC 764705 p.Leu446Lys missense_variant 0.39
rpoC 764874 p.Pro502His missense_variant 0.12
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 776100 p.Thr794Ile missense_variant 1.0
mmpL5 776182 p.Asp767Asn missense_variant 1.0
mmpL5 776459 c.2022G>T synonymous_variant 0.12
mmpS5 779615 c.-710C>G upstream_gene_variant 0.96
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303016 p.Val29Gly missense_variant 0.18
fbiC 1304445 c.1515G>C synonymous_variant 0.17
Rv1258c 1406760 c.580_581insC frameshift_variant 1.0
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1471876 n.31G>A non_coding_transcript_exon_variant 0.35
rrs 1471877 n.32A>G non_coding_transcript_exon_variant 0.35
rrs 1471892 n.47G>A non_coding_transcript_exon_variant 0.38
rrs 1471893 n.48T>G non_coding_transcript_exon_variant 0.39
rrs 1471896 n.51T>C non_coding_transcript_exon_variant 0.36
rrs 1471917 n.72G>A non_coding_transcript_exon_variant 0.3
rrs 1471918 n.74_78delAAGGT non_coding_transcript_exon_variant 0.36
rrs 1471934 n.89A>T non_coding_transcript_exon_variant 0.31
rrs 1471935 n.92_96delCTCGA non_coding_transcript_exon_variant 0.36
rrs 1471948 n.103A>G non_coding_transcript_exon_variant 0.38
rrs 1472094 n.249T>A non_coding_transcript_exon_variant 0.17
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.29
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.32
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.42
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.44
rrs 1472127 n.282C>T non_coding_transcript_exon_variant 0.51
rrs 1472128 n.283G>C non_coding_transcript_exon_variant 0.51
rrs 1472129 n.284G>A non_coding_transcript_exon_variant 0.51
rrs 1472135 n.290C>T non_coding_transcript_exon_variant 0.62
rrs 1472138 n.293C>T non_coding_transcript_exon_variant 0.65
rrs 1472147 n.302G>A non_coding_transcript_exon_variant 0.68
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.68
rrs 1472153 n.308G>A non_coding_transcript_exon_variant 0.72
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.76
rrs 1472210 n.365A>C non_coding_transcript_exon_variant 0.71
rrs 1472215 n.370A>G non_coding_transcript_exon_variant 0.7
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.7
rrs 1472234 n.389T>C non_coding_transcript_exon_variant 0.61
rrs 1472240 n.395G>C non_coding_transcript_exon_variant 0.51
rrs 1472242 n.397C>T non_coding_transcript_exon_variant 0.53
rrs 1472338 n.493A>C non_coding_transcript_exon_variant 0.33
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.33
rrs 1472349 n.504A>T non_coding_transcript_exon_variant 0.35
rrs 1472374 n.529T>A non_coding_transcript_exon_variant 0.35
rrs 1472379 n.534T>G non_coding_transcript_exon_variant 0.37
rrs 1472382 n.537G>T non_coding_transcript_exon_variant 0.33
rrs 1472390 n.545T>C non_coding_transcript_exon_variant 0.32
rrs 1472391 n.546C>T non_coding_transcript_exon_variant 0.31
rrs 1472412 n.567A>G non_coding_transcript_exon_variant 0.23
rrs 1472415 n.570T>G non_coding_transcript_exon_variant 0.24
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.22
rrs 1472507 n.662C>G non_coding_transcript_exon_variant 0.14
rrs 1472517 n.672T>A non_coding_transcript_exon_variant 0.19
rrs 1472518 n.673G>T non_coding_transcript_exon_variant 0.19
rrs 1472530 n.685G>A non_coding_transcript_exon_variant 0.25
rrs 1472537 n.692C>T non_coding_transcript_exon_variant 0.23
rrs 1472544 n.699C>A non_coding_transcript_exon_variant 0.25
rrs 1472545 n.700A>T non_coding_transcript_exon_variant 0.25
rrs 1472566 n.721G>A non_coding_transcript_exon_variant 0.19
rrs 1472571 n.726G>C non_coding_transcript_exon_variant 0.19
rrs 1472579 n.734G>C non_coding_transcript_exon_variant 0.18
rrs 1472580 n.735C>T non_coding_transcript_exon_variant 0.18
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.17
rrs 1472694 n.849C>A non_coding_transcript_exon_variant 0.17
rrs 1472697 n.852T>C non_coding_transcript_exon_variant 0.27
rrs 1472713 n.868T>C non_coding_transcript_exon_variant 0.63
rrs 1472715 n.870C>A non_coding_transcript_exon_variant 0.63
rrs 1472716 n.871C>T non_coding_transcript_exon_variant 0.63
rrs 1472734 n.889C>T non_coding_transcript_exon_variant 0.78
rrs 1472741 n.896G>A non_coding_transcript_exon_variant 0.78
rrs 1472742 n.897C>T non_coding_transcript_exon_variant 0.78
rrs 1472781 n.936C>T non_coding_transcript_exon_variant 0.73
rrs 1472793 n.948A>T non_coding_transcript_exon_variant 0.74
rrs 1472803 n.958T>A non_coding_transcript_exon_variant 0.65
rrs 1472812 n.967A>C non_coding_transcript_exon_variant 0.58
rrs 1472824 n.979T>A non_coding_transcript_exon_variant 0.13
rrs 1472887 n.1042G>C non_coding_transcript_exon_variant 0.12
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.11
rrs 1473147 n.1302G>T non_coding_transcript_exon_variant 0.11
rrs 1473148 n.1303G>C non_coding_transcript_exon_variant 0.11
rrs 1473149 n.1304G>C non_coding_transcript_exon_variant 0.11
rrs 1473162 n.1317C>G non_coding_transcript_exon_variant 0.14
rrs 1473163 n.1318C>G non_coding_transcript_exon_variant 0.14
rrs 1473164 n.1319C>G non_coding_transcript_exon_variant 0.14
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.14
rrs 1473173 n.1328C>T non_coding_transcript_exon_variant 0.15
rrs 1473177 n.1332G>A non_coding_transcript_exon_variant 0.15
rrs 1473192 n.1347A>G non_coding_transcript_exon_variant 0.15
rrs 1473205 n.1360T>C non_coding_transcript_exon_variant 0.16
rrs 1473352 n.1507C>G non_coding_transcript_exon_variant 0.14
rrs 1473353 n.1508C>G non_coding_transcript_exon_variant 0.14
rrs 1473358 n.1513G>C non_coding_transcript_exon_variant 0.14
rrs 1473359 n.1514G>C non_coding_transcript_exon_variant 0.14
rrl 1474838 n.1181C>T non_coding_transcript_exon_variant 0.26
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.32
rrl 1474869 n.1212G>T non_coding_transcript_exon_variant 0.32
rrl 1474875 n.1218G>A non_coding_transcript_exon_variant 0.33
rrl 1474876 n.1219T>A non_coding_transcript_exon_variant 0.33
rrl 1474883 n.1226T>C non_coding_transcript_exon_variant 0.29
rrl 1474893 n.1236G>A non_coding_transcript_exon_variant 0.33
rrl 1474899 n.1242T>C non_coding_transcript_exon_variant 0.32
rrl 1474903 n.1246T>C non_coding_transcript_exon_variant 0.33
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.33
rrl 1474910 n.1253C>G non_coding_transcript_exon_variant 0.32
rrl 1474913 n.1256T>A non_coding_transcript_exon_variant 0.3
rrl 1474920 n.1263G>A non_coding_transcript_exon_variant 0.3
rrl 1474928 n.1271C>A non_coding_transcript_exon_variant 0.26
rrl 1475499 n.1842C>G non_coding_transcript_exon_variant 0.45
rrl 1475526 n.1869C>T non_coding_transcript_exon_variant 0.42
rrl 1475538 n.1881T>C non_coding_transcript_exon_variant 0.36
rrl 1475539 n.1882A>T non_coding_transcript_exon_variant 0.36
rrl 1475540 n.1883C>T non_coding_transcript_exon_variant 0.36
rrl 1475545 n.1888T>G non_coding_transcript_exon_variant 0.34
rrl 1475550 n.1893A>G non_coding_transcript_exon_variant 0.34
rrl 1475553 n.1896G>C non_coding_transcript_exon_variant 0.33
rrl 1475555 n.1898T>G non_coding_transcript_exon_variant 0.36
rrl 1475571 n.1914A>T non_coding_transcript_exon_variant 0.41
rrl 1475575 n.1918C>A non_coding_transcript_exon_variant 0.46
rrl 1475577 n.1920C>G non_coding_transcript_exon_variant 0.46
rrl 1475589 n.1932G>A non_coding_transcript_exon_variant 0.24
rrl 1475591 n.1934G>T non_coding_transcript_exon_variant 0.11
rrl 1475791 n.2134A>G non_coding_transcript_exon_variant 0.13
rrl 1475803 n.2146T>C non_coding_transcript_exon_variant 0.37
rrl 1475804 n.2147G>C non_coding_transcript_exon_variant 0.39
rrl 1475816 n.2159C>G non_coding_transcript_exon_variant 0.43
rrl 1475817 n.2160A>G non_coding_transcript_exon_variant 0.44
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.29
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.26
rrl 1476238 n.2581T>C non_coding_transcript_exon_variant 0.22
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.39
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.43
rrl 1476266 n.2609G>A non_coding_transcript_exon_variant 0.44
rrl 1476279 n.2622G>C non_coding_transcript_exon_variant 0.46
rrl 1476280 n.2623A>C non_coding_transcript_exon_variant 0.44
rrl 1476281 n.2624T>A non_coding_transcript_exon_variant 0.44
rrl 1476293 n.2636C>T non_coding_transcript_exon_variant 0.44
rrl 1476294 n.2637A>G non_coding_transcript_exon_variant 0.44
rrl 1476295 n.2638C>G non_coding_transcript_exon_variant 0.44
rrl 1476296 n.2639C>T non_coding_transcript_exon_variant 0.44
rrl 1476301 n.2644A>C non_coding_transcript_exon_variant 0.59
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.59
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.62
rrl 1476313 n.2656G>A non_coding_transcript_exon_variant 0.65
rrl 1476336 n.2679C>T non_coding_transcript_exon_variant 0.76
rrl 1476338 n.2681C>T non_coding_transcript_exon_variant 0.77
rrl 1476339 n.2682G>A non_coding_transcript_exon_variant 0.75
rrl 1476356 n.2699C>T non_coding_transcript_exon_variant 0.84
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.85
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.9
rrl 1476383 n.2726T>A non_coding_transcript_exon_variant 0.9
rrl 1476384 n.2727G>A non_coding_transcript_exon_variant 0.9
rrl 1476408 n.2751G>A non_coding_transcript_exon_variant 0.92
rrl 1476411 n.2754G>A non_coding_transcript_exon_variant 0.94
rrl 1476442 n.2785T>A non_coding_transcript_exon_variant 0.92
rrl 1476443 n.2786G>C non_coding_transcript_exon_variant 0.92
rrl 1476455 n.2798C>G non_coding_transcript_exon_variant 0.88
rrl 1476456 n.2799A>T non_coding_transcript_exon_variant 0.88
rrl 1476463 n.2806C>T non_coding_transcript_exon_variant 0.86
rrl 1476466 n.2809C>T non_coding_transcript_exon_variant 0.84
rrl 1476470 n.2813C>T non_coding_transcript_exon_variant 0.85
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.83
rrl 1476501 n.2844C>T non_coding_transcript_exon_variant 0.63
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.59
rrl 1476512 n.2855C>T non_coding_transcript_exon_variant 0.48
rrl 1476517 n.2860C>T non_coding_transcript_exon_variant 0.19
rpsA 1834177 c.636A>C synonymous_variant 0.89
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102540 p.Ala168Gly missense_variant 0.17
katG 2154046 p.Trp689Leu missense_variant 0.11
katG 2154724 p.Arg463Leu missense_variant 1.0
PPE35 2167926 p.Leu896Ser missense_variant 0.9
PPE35 2170026 p.Pro196Leu missense_variant 0.2
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2715117 c.216T>G synonymous_variant 0.11
thyA 3073806 c.666C>G synonymous_variant 0.2
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fbiD 3339273 c.156T>G synonymous_variant 0.38
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612813 p.Thr102Ala missense_variant 1.0
fbiA 3641332 p.Gly264Arg missense_variant 1.0
fbiB 3642772 p.Asp413Ala missense_variant 0.29
rpoA 3878412 p.Tyr32* stop_gained 0.12
ddn 3986740 c.-104G>T upstream_gene_variant 0.12
clpC1 4039484 c.1221T>G synonymous_variant 0.38
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243460 c.228C>T synonymous_variant 1.0
embB 4246737 p.Thr75Met missense_variant 0.12
aftB 4267647 p.Asp397Gly missense_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4407588 c.615A>G synonymous_variant 1.0
gid 4407927 p.Glu92Asp missense_variant 1.0