TB-Profiler result

Run: SRR16627752
Summary

Run ID: SRR16627752

Sample name:

Date: 03-04-2023 17:45:26

Number of reads: 2000538

Percentage reads mapped: 37.8

Strain: lineage4.4

Drug-resistance: RR-TB

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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
lineage4.4 Euro-American S;T 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
rpoB 761127 p.Ser441Ala missense_variant 0.62 rifampicin
rpoB 761196 p.Leu464Met missense_variant 0.53 rifampicin
rrs 1472644 n.799C>T non_coding_transcript_exon_variant 0.85 streptomycin
rrs 1473247 n.1402C>A non_coding_transcript_exon_variant 0.91 kanamycin, capreomycin, aminoglycosides, amikacin
rrs 1473329 n.1484G>T non_coding_transcript_exon_variant 0.82 kanamycin, capreomycin, aminoglycosides, amikacin
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 0.97
rpoB 760892 c.1086C>T synonymous_variant 0.11
rpoB 760920 p.Leu372Ile missense_variant 0.37
rpoB 760925 c.1119T>C synonymous_variant 0.38
rpoB 760926 p.Thr374Ala missense_variant 0.38
rpoB 760931 c.1125C>G synonymous_variant 0.37
rpoB 760944 p.Gln380Glu missense_variant 0.39
rpoB 760970 c.1164G>C synonymous_variant 0.36
rpoB 760973 c.1167G>C synonymous_variant 0.36
rpoB 760982 c.1176G>C synonymous_variant 0.36
rpoB 760985 c.1179G>C synonymous_variant 0.36
rpoB 760988 c.1182C>G synonymous_variant 0.36
rpoB 760991 c.1185G>C synonymous_variant 0.35
rpoB 760997 c.1191G>C synonymous_variant 0.41
rpoB 761015 c.1209G>C synonymous_variant 0.46
rpoB 761027 c.1221A>C synonymous_variant 0.49
rpoB 761036 c.1230G>C synonymous_variant 0.51
rpoB 761037 c.1231T>C synonymous_variant 0.51
rpoB 761051 c.1245G>C synonymous_variant 0.47
rpoB 761054 c.1248G>C synonymous_variant 0.46
rpoB 761060 c.1254C>G synonymous_variant 0.48
rpoB 761063 c.1257C>G synonymous_variant 0.49
rpoB 761088 c.1282_1283delAGinsTC synonymous_variant 0.51
rpoB 761097 c.1291_1293delAGCinsTCG synonymous_variant 0.51
rpoB 761102 c.1296A>G synonymous_variant 0.52
rpoB 761111 c.1305C>T synonymous_variant 0.57
rpoB 761126 c.1320G>C synonymous_variant 0.62
rpoB 761132 c.1326G>C synonymous_variant 0.63
rpoB 761133 c.1327T>C synonymous_variant 0.66
rpoB 761147 c.1341C>T synonymous_variant 0.66
rpoB 761150 c.1344A>G synonymous_variant 0.63
rpoB 761156 c.1350G>C synonymous_variant 0.62
rpoB 761159 c.1353G>T synonymous_variant 0.61
rpoB 761165 c.1359G>C synonymous_variant 0.63
rpoB 761174 c.1368T>C synonymous_variant 0.56
rpoB 761180 c.1374A>C synonymous_variant 0.56
rpoB 761183 c.1377T>C synonymous_variant 0.53
rpoB 761186 p.Glu460Asp missense_variant 0.54
rpoB 761189 c.1383T>C synonymous_variant 0.55
rpoB 761195 c.1389G>C synonymous_variant 0.54
rpoB 761201 c.1395G>A synonymous_variant 0.53
rpoB 761213 c.1407G>C synonymous_variant 0.5
rpoB 761234 c.1428G>C synonymous_variant 0.41
rpoB 761249 c.1443A>G synonymous_variant 0.37
rpoB 761261 c.1455G>C synonymous_variant 0.26
rpoB 761262 p.Pro486Ser missense_variant 0.26
rpoB 761273 c.1467T>C synonymous_variant 0.25
rpoB 761534 c.1728G>C synonymous_variant 0.18
rpoB 761537 c.1731C>G synonymous_variant 0.2
rpoB 761558 c.1752C>G synonymous_variant 0.26
rpoB 761564 c.1758G>C synonymous_variant 0.26
rpoB 761565 p.Met587Leu missense_variant 0.26
rpoB 761570 c.1764T>C synonymous_variant 0.27
rpoB 761573 c.1767C>G synonymous_variant 0.28
rpoB 761575 p.Phe590Tyr missense_variant 0.29
rpoB 761579 c.1773G>C synonymous_variant 0.27
rpoB 761600 c.1794T>C synonymous_variant 0.26
rpoB 761603 c.1797C>G synonymous_variant 0.26
rpoB 761612 c.1806G>C synonymous_variant 0.22
rpoB 761615 c.1809A>C synonymous_variant 0.22
rpoB 761633 c.1827G>C synonymous_variant 0.21
rpoB 761643 p.Val613Leu missense_variant 0.2
rpoB 761663 c.1857G>C synonymous_variant 0.16
rpoB 761675 c.1869G>C synonymous_variant 0.12
rpoB 761925 p.Met707Leu missense_variant 0.14
rpoB 761930 c.2124G>C synonymous_variant 0.21
rpoB 761948 c.2142G>C synonymous_variant 0.37
rpoB 761955 p.Ile717Tyr missense_variant 0.37
rpoB 761961 p.Pro719Ser missense_variant 0.39
rpoB 761974 p.His723Leu missense_variant 0.47
rpoB 761990 c.2184G>C synonymous_variant 0.5
rpoB 762003 p.Asn733Gln missense_variant 0.45
rpoB 762009 p.Leu735Met missense_variant 0.44
rpoB 762015 p.Glu737Ser missense_variant 0.45
rpoB 762020 p.Glu738Asp missense_variant 0.43
rpoB 762026 c.2220G>C synonymous_variant 0.39
rpoB 762029 c.2223C>G synonymous_variant 0.4
rpoB 762053 c.2247T>C synonymous_variant 0.42
rpoB 762065 c.2259T>C synonymous_variant 0.4
rpoB 762080 c.2274G>C synonymous_variant 0.33
rpoB 762086 c.2280G>C synonymous_variant 0.27
rpoB 762098 c.2292C>G synonymous_variant 0.17
rpoB 762849 p.Tyr1015Asp missense_variant 0.21
rpoB 762855 p.Val1017Ile missense_variant 0.23
rpoB 762858 p.Thr1018Ser missense_variant 0.22
rpoC 762863 c.-507T>C upstream_gene_variant 0.28
rpoB 762870 p.Met1022Gln missense_variant 0.28
rpoB 762879 p.Met1025Leu missense_variant 0.33
rpoC 762923 c.-447C>G upstream_gene_variant 0.47
rpoC 762929 c.-441G>C upstream_gene_variant 0.46
rpoC 762947 c.-423C>G upstream_gene_variant 0.46
rpoC 762956 c.-414G>C upstream_gene_variant 0.48
rpoC 762971 c.-399G>C upstream_gene_variant 0.52
rpoC 762980 c.-390T>C upstream_gene_variant 0.56
rpoC 762989 c.-381G>C upstream_gene_variant 0.58
rpoC 762995 c.-375G>C upstream_gene_variant 0.56
rpoB 763005 p.Cys1067Val missense_variant 0.57
rpoC 763013 c.-357C>A upstream_gene_variant 0.56
rpoB 763014 p.Met1070Leu missense_variant 0.56
rpoB 763017 p.Gln1071Glu missense_variant 0.56
rpoC 763028 c.-342T>C upstream_gene_variant 0.53
rpoC 763031 c.-339T>C upstream_gene_variant 0.51
rpoC 763040 c.-330C>G upstream_gene_variant 0.5
rpoB 763050 p.Leu1082Ile missense_variant 0.41
rpoC 763053 c.-317T>C upstream_gene_variant 0.41
rpoB 763059 p.Ile1085Val missense_variant 0.41
rpoC 763067 c.-303C>G upstream_gene_variant 0.43
rpoB 763072 c.3268_3270delACC conservative_inframe_deletion 0.43
rpoB 763078 c.3272_3273insGCA disruptive_inframe_insertion 0.42
rpoC 763088 c.-282C>G upstream_gene_variant 0.49
rpoC 763094 c.-276G>C upstream_gene_variant 0.51
rpoC 763115 c.-255T>C upstream_gene_variant 0.41
rpoC 763136 c.-234C>T upstream_gene_variant 0.16
rpoC 763456 c.87A>G synonymous_variant 0.28
rpoC 763462 c.93G>C synonymous_variant 0.32
rpoC 763468 c.99G>C synonymous_variant 0.36
rpoC 763486 c.117T>C synonymous_variant 0.46
rpoC 763504 c.135C>G synonymous_variant 0.55
rpoC 763507 c.138G>C synonymous_variant 0.55
rpoC 763518 p.Lys50Arg missense_variant 0.61
rpoC 763528 c.159G>C synonymous_variant 0.6
rpoC 763531 c.162G>C synonymous_variant 0.6
rpoC 763534 c.165T>C synonymous_variant 0.6
rpoC 763540 c.171C>T synonymous_variant 0.6
rpoC 763546 c.177A>G synonymous_variant 0.6
rpoC 763550 p.Tyr61Ala missense_variant 0.6
rpoC 763570 c.201G>C synonymous_variant 0.69
rpoC 763578 p.Phe70Tyr missense_variant 0.7
rpoC 763621 c.252C>T synonymous_variant 0.75
rpoC 763633 c.264T>C synonymous_variant 0.77
rpoC 763636 c.267T>C synonymous_variant 0.76
rpoC 763642 c.273G>C synonymous_variant 0.76
rpoC 763648 c.279C>G synonymous_variant 0.74
rpoC 763652 p.Ile95Leu missense_variant 0.72
rpoC 763660 c.291T>C synonymous_variant 0.72
rpoC 763666 c.297G>T synonymous_variant 0.71
rpoC 763669 c.300C>G synonymous_variant 0.7
rpoC 763672 c.303C>G synonymous_variant 0.7
rpoC 763696 c.327T>C synonymous_variant 0.7
rpoC 763705 c.336G>T synonymous_variant 0.67
rpoC 763708 c.339G>T synonymous_variant 0.65
rpoC 763714 c.345G>C synonymous_variant 0.64
rpoC 763717 c.348T>C synonymous_variant 0.63
rpoC 763732 c.363C>G synonymous_variant 0.56
rpoC 763735 c.366G>C synonymous_variant 0.57
rpoC 763751 p.Ile128Val missense_variant 0.51
rpoC 763765 c.396T>G synonymous_variant 0.26
rpoC 764461 c.1092A>G synonymous_variant 0.14
rpoC 764470 c.1101C>G synonymous_variant 0.36
rpoC 764485 c.1116G>C synonymous_variant 0.47
rpoC 764491 c.1122G>C synonymous_variant 0.49
rpoC 764497 c.1128A>G synonymous_variant 0.52
rpoC 764498 p.Ser377Ala missense_variant 0.52
rpoC 764507 p.Ala380Ser missense_variant 0.56
rpoC 764521 c.1152T>C synonymous_variant 0.6
rpoC 764527 c.1158C>T synonymous_variant 0.65
rpoC 764536 c.1167G>T synonymous_variant 0.66
rpoC 764545 c.1176C>G synonymous_variant 0.63
rpoC 764548 c.1179G>C synonymous_variant 0.63
rpoC 764560 c.1191T>C synonymous_variant 0.64
rpoC 764561 p.Pro398Ala missense_variant 0.66
rpoC 764575 c.1206T>G synonymous_variant 0.69
rpoC 764578 c.1209C>G synonymous_variant 0.68
rpoC 764581 c.1212T>C synonymous_variant 0.66
rpoC 764582 p.Leu405Met missense_variant 0.67
rpoC 764605 c.1236G>C synonymous_variant 0.71
rpoC 764611 c.1242G>C synonymous_variant 0.7
rpoC 764632 c.1263T>C synonymous_variant 0.64
rpoC 764635 c.1266C>G synonymous_variant 0.64
rpoC 764650 c.1281G>C synonymous_variant 0.67
rpoC 764706 p.Leu446Gln missense_variant 0.64
rpoC 764716 c.1347G>C synonymous_variant 0.65
rpoC 764746 c.1377G>C synonymous_variant 0.54
rpoC 764752 c.1383G>C synonymous_variant 0.53
rpoC 764755 c.1386C>T synonymous_variant 0.51
rpoC 764758 c.1389C>G synonymous_variant 0.49
rpoC 764764 c.1395T>C synonymous_variant 0.49
rpoC 764780 c.1411_1413delAGCinsTCG synonymous_variant 0.44
rpoC 764791 c.1422C>G synonymous_variant 0.4
rpoC 764797 c.1428G>C synonymous_variant 0.4
rpoC 764804 p.Gln479Phe missense_variant 0.33
rpoC 764812 c.1443C>G synonymous_variant 0.33
rpoC 764815 c.1446A>G synonymous_variant 0.32
rpoC 764824 c.1455T>C synonymous_variant 0.34
rpoC 764827 c.1458G>C synonymous_variant 0.35
rpoC 764830 c.1461C>G synonymous_variant 0.34
rpoC 764843 p.Ala492Thr missense_variant 0.34
rpoC 764858 c.1489T>C synonymous_variant 0.29
rpoC 764863 c.1494G>C synonymous_variant 0.28
rpoC 764872 c.1503A>C synonymous_variant 0.21
rpoC 764887 c.1518G>C synonymous_variant 0.17
rpoC 764888 c.1519T>C synonymous_variant 0.17
rpoC 764893 c.1524T>C synonymous_variant 0.19
rpoC 764911 c.1542A>G synonymous_variant 0.18
rpoC 764912 p.Met515Gln missense_variant 0.17
rpoC 764917 c.1548G>C synonymous_variant 0.17
rpoC 764920 c.1551G>C synonymous_variant 0.17
rpoC 764923 c.1554A>G synonymous_variant 0.17
rpoC 764935 c.1566T>C synonymous_variant 0.17
rpoC 764948 c.1579_1581delTTGinsCTC synonymous_variant 0.19
rpoC 764956 c.1587T>C synonymous_variant 0.19
rpoC 764957 p.Glu530Ser missense_variant 0.2
rpoC 764968 c.1599T>C synonymous_variant 0.18
rpoC 764971 c.1602C>G synonymous_variant 0.18
rpoC 764983 c.1614T>C synonymous_variant 0.18
mmpL5 775639 p.Ile948Val missense_variant 1.0
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
rplC 800618 c.-191T>C upstream_gene_variant 0.14
rplC 800633 c.-176T>C upstream_gene_variant 0.2
rplC 800634 c.-175_-174delTGinsAC upstream_gene_variant 0.2
rplC 800639 c.-170C>G upstream_gene_variant 0.21
rplC 800645 c.-164C>G upstream_gene_variant 0.21
rplC 800648 c.-161A>G upstream_gene_variant 0.21
rplC 800654 c.-155T>C upstream_gene_variant 0.21
rplC 800667 c.-142_-140delTCGinsAGC upstream_gene_variant 0.23
rplC 800672 c.-137G>T upstream_gene_variant 0.22
rplC 800693 c.-116A>G upstream_gene_variant 0.22
rplC 800702 c.-107G>C upstream_gene_variant 0.24
rplC 800703 c.-106T>C upstream_gene_variant 0.24
rplC 800715 c.-94A>G upstream_gene_variant 0.23
rplC 800733 c.-76_-74delACCinsGCG upstream_gene_variant 0.22
rplC 800738 c.-71T>C upstream_gene_variant 0.22
rplC 800742 c.-67G>T upstream_gene_variant 0.22
rplC 800753 c.-56C>A upstream_gene_variant 0.22
rplC 800754 c.-55A>C upstream_gene_variant 0.22
rplC 800762 c.-47T>G upstream_gene_variant 0.19
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
rrs 1472080 n.235G>A non_coding_transcript_exon_variant 0.22
rrs 1472102 n.257G>A non_coding_transcript_exon_variant 0.59
rrs 1472106 n.261G>A non_coding_transcript_exon_variant 0.6
rrs 1472108 n.263C>T non_coding_transcript_exon_variant 0.6
rrs 1472112 n.267C>T non_coding_transcript_exon_variant 0.61
rrs 1472113 n.268T>C non_coding_transcript_exon_variant 0.61
rrs 1472150 n.305T>A non_coding_transcript_exon_variant 0.83
rrs 1472172 n.327T>C non_coding_transcript_exon_variant 0.84
rrs 1472225 n.380C>A non_coding_transcript_exon_variant 0.85
rrs 1472251 n.406G>A non_coding_transcript_exon_variant 0.84
rrs 1472286 n.441C>G non_coding_transcript_exon_variant 0.5
rrs 1472289 n.444T>G non_coding_transcript_exon_variant 0.43
rrs 1472290 n.445C>G non_coding_transcript_exon_variant 0.44
rrs 1472293 n.448C>A non_coding_transcript_exon_variant 0.44
rrs 1472297 n.453_454delGT non_coding_transcript_exon_variant 0.45
rrs 1472324 n.479G>C non_coding_transcript_exon_variant 0.42
rrs 1472325 n.480G>C non_coding_transcript_exon_variant 0.42
rrs 1472328 n.483G>C non_coding_transcript_exon_variant 0.43
rrs 1472338 n.493A>G non_coding_transcript_exon_variant 0.44
rrs 1472344 n.499C>T non_coding_transcript_exon_variant 0.45
rrs 1472379 n.534T>C non_coding_transcript_exon_variant 0.42
rrs 1472382 n.537G>A non_coding_transcript_exon_variant 0.39
rrs 1472400 n.555C>T non_coding_transcript_exon_variant 0.31
rrs 1472422 n.577T>C non_coding_transcript_exon_variant 0.17
rrs 1472450 n.605A>G non_coding_transcript_exon_variant 0.14
rrs 1472464 n.619A>G non_coding_transcript_exon_variant 0.12
rrs 1472466 n.621C>T non_coding_transcript_exon_variant 0.13
rrs 1472471 n.626G>A non_coding_transcript_exon_variant 0.13
rrs 1472473 n.628G>T non_coding_transcript_exon_variant 0.13
rrs 1472474 n.629C>G non_coding_transcript_exon_variant 0.13
rrs 1472476 n.631A>G non_coding_transcript_exon_variant 0.23
rrs 1472494 n.649A>G non_coding_transcript_exon_variant 0.57
rrs 1472496 n.651T>A non_coding_transcript_exon_variant 0.57
rrs 1472498 n.653C>T non_coding_transcript_exon_variant 0.59
rrs 1472558 n.713G>A non_coding_transcript_exon_variant 0.76
rrs 1472569 n.724G>A non_coding_transcript_exon_variant 0.77
rrs 1472581 n.736A>T non_coding_transcript_exon_variant 0.82
rrs 1472584 n.739A>T non_coding_transcript_exon_variant 0.82
rrs 1472607 n.762G>A non_coding_transcript_exon_variant 0.86
rrs 1472655 n.810G>T non_coding_transcript_exon_variant 0.84
rrs 1472660 n.815T>C non_coding_transcript_exon_variant 0.83
rrs 1472673 n.828T>G non_coding_transcript_exon_variant 0.82
rrs 1472674 n.829T>G non_coding_transcript_exon_variant 0.81
rrs 1472675 n.830T>A non_coding_transcript_exon_variant 0.81
rrs 1472677 n.832C>A non_coding_transcript_exon_variant 0.81
rrs 1472692 n.847T>C non_coding_transcript_exon_variant 0.84
rrs 1472714 n.869A>G non_coding_transcript_exon_variant 0.85
rrs 1472880 n.1035G>A non_coding_transcript_exon_variant 0.15
rrs 1472895 n.1050C>T non_coding_transcript_exon_variant 0.59
rrs 1472952 n.1107T>C non_coding_transcript_exon_variant 0.84
rrs 1472955 n.1110C>T non_coding_transcript_exon_variant 0.83
rrs 1472956 n.1111T>C non_coding_transcript_exon_variant 0.83
rrs 1472973 n.1128A>G non_coding_transcript_exon_variant 0.84
rrs 1472987 n.1142G>A non_coding_transcript_exon_variant 0.83
rrs 1472990 n.1145A>G non_coding_transcript_exon_variant 0.84
rrs 1473035 n.1190G>A non_coding_transcript_exon_variant 0.87
rrs 1473055 n.1210C>T non_coding_transcript_exon_variant 0.87
rrs 1473056 n.1211A>T non_coding_transcript_exon_variant 0.87
rrs 1473066 n.1221A>G non_coding_transcript_exon_variant 0.87
rrs 1473093 n.1248C>T non_coding_transcript_exon_variant 0.86
rrs 1473100 n.1255G>A non_coding_transcript_exon_variant 0.85
rrs 1473102 n.1257C>T non_coding_transcript_exon_variant 0.85
rrs 1473104 n.1259C>T non_coding_transcript_exon_variant 0.84
rrs 1473110 n.1265T>G non_coding_transcript_exon_variant 0.85
rrs 1473111 n.1266A>G non_coding_transcript_exon_variant 0.85
rrs 1473115 n.1270G>T non_coding_transcript_exon_variant 0.85
rrs 1473121 n.1276T>C non_coding_transcript_exon_variant 0.85
rrs 1473122 n.1277T>A non_coding_transcript_exon_variant 0.86
rrs 1473145 n.1300C>T non_coding_transcript_exon_variant 0.89
rrs 1473147 n.1302G>A non_coding_transcript_exon_variant 0.88
rrs 1473164 n.1319C>T non_coding_transcript_exon_variant 0.89
rrs 1473166 n.1321G>A non_coding_transcript_exon_variant 0.89
rrs 1473252 n.1407T>C non_coding_transcript_exon_variant 0.91
rrs 1473276 n.1431A>G non_coding_transcript_exon_variant 0.91
rrs 1473283 n.1438T>C non_coding_transcript_exon_variant 0.9
rrs 1473290 n.1445C>T non_coding_transcript_exon_variant 0.89
rrs 1473291 n.1446_1447insT non_coding_transcript_exon_variant 0.9
rrs 1473301 n.1456T>C non_coding_transcript_exon_variant 0.88
rrs 1473315 n.1470T>C non_coding_transcript_exon_variant 0.85
rrs 1473316 n.1471C>T non_coding_transcript_exon_variant 0.85
rrl 1473833 n.176G>A non_coding_transcript_exon_variant 0.14
rrl 1473871 n.214T>C non_coding_transcript_exon_variant 0.2
rrl 1473876 n.219G>A non_coding_transcript_exon_variant 0.2
rrl 1473887 n.230T>C non_coding_transcript_exon_variant 0.15
rrl 1473888 n.231T>A non_coding_transcript_exon_variant 0.15
rrl 1474151 n.494C>T non_coding_transcript_exon_variant 0.19
rrl 1474155 n.498G>A non_coding_transcript_exon_variant 0.2
rrl 1474164 n.507C>T non_coding_transcript_exon_variant 0.22
rrl 1474174 n.517A>G non_coding_transcript_exon_variant 0.23
rrl 1474181 n.524C>A non_coding_transcript_exon_variant 0.21
rrl 1474183 n.526T>C non_coding_transcript_exon_variant 0.23
rrl 1474184 n.527C>T non_coding_transcript_exon_variant 0.25
rrl 1474201 n.544T>C non_coding_transcript_exon_variant 0.54
rrl 1474202 n.545T>C non_coding_transcript_exon_variant 0.55
rrl 1474218 n.561T>A non_coding_transcript_exon_variant 0.74
rrl 1474228 n.571T>C non_coding_transcript_exon_variant 0.78
rrl 1474249 n.592G>T non_coding_transcript_exon_variant 0.83
rrl 1474275 n.618T>G non_coding_transcript_exon_variant 0.85
rrl 1474281 n.624A>G non_coding_transcript_exon_variant 0.84
rrl 1474284 n.631_633delCCT non_coding_transcript_exon_variant 0.84
rrl 1474316 n.659T>C non_coding_transcript_exon_variant 0.82
rrl 1474348 n.691C>T non_coding_transcript_exon_variant 0.84
rrl 1474351 n.694G>T non_coding_transcript_exon_variant 0.83
rrl 1474353 n.696A>T non_coding_transcript_exon_variant 0.83
rrl 1474362 n.705A>G non_coding_transcript_exon_variant 0.83
rrl 1474384 n.727C>T non_coding_transcript_exon_variant 0.76
rrl 1474387 n.730C>T non_coding_transcript_exon_variant 0.75
rrl 1474406 n.749T>G non_coding_transcript_exon_variant 0.65
rrl 1474450 n.793T>A non_coding_transcript_exon_variant 0.68
rrl 1474454 n.797G>A non_coding_transcript_exon_variant 0.73
rrl 1474466 n.809G>A non_coding_transcript_exon_variant 0.79
rrl 1474488 n.831G>T non_coding_transcript_exon_variant 0.82
rrl 1474498 n.841G>T non_coding_transcript_exon_variant 0.81
rrl 1474505 n.848C>G non_coding_transcript_exon_variant 0.83
rrl 1474508 n.851C>T non_coding_transcript_exon_variant 0.21
rrl 1474516 n.859C>A non_coding_transcript_exon_variant 0.8
rrl 1474529 n.872A>C non_coding_transcript_exon_variant 0.8
rrl 1474530 n.873G>A non_coding_transcript_exon_variant 0.8
rrl 1474537 n.880G>A non_coding_transcript_exon_variant 0.81
rrl 1474539 n.882C>T non_coding_transcript_exon_variant 0.81
rrl 1474540 n.883T>G non_coding_transcript_exon_variant 0.82
rrl 1474583 n.926C>T non_coding_transcript_exon_variant 0.87
rrl 1474626 n.969T>C non_coding_transcript_exon_variant 0.71
rrl 1474628 n.971C>T non_coding_transcript_exon_variant 0.68
rrl 1474632 n.975G>T non_coding_transcript_exon_variant 0.69
rrl 1474636 n.979A>T non_coding_transcript_exon_variant 0.7
rrl 1474637 n.980C>T non_coding_transcript_exon_variant 0.7
rrl 1474638 n.981C>G non_coding_transcript_exon_variant 0.7
rrl 1474639 n.982G>C non_coding_transcript_exon_variant 0.7
rrl 1474641 n.984G>A non_coding_transcript_exon_variant 0.7
rrl 1474663 n.1006C>T non_coding_transcript_exon_variant 0.76
rrl 1474673 n.1016T>C non_coding_transcript_exon_variant 0.73
rrl 1474675 n.1018C>A non_coding_transcript_exon_variant 0.73
rrl 1474676 n.1019T>C non_coding_transcript_exon_variant 0.72
rrl 1474677 n.1020A>G non_coding_transcript_exon_variant 0.74
rrl 1474692 n.1035G>A non_coding_transcript_exon_variant 0.71
rrl 1474707 n.1051_1052delCG non_coding_transcript_exon_variant 0.55
rrl 1474721 n.1064G>A non_coding_transcript_exon_variant 0.53
rrl 1474722 n.1065T>C non_coding_transcript_exon_variant 0.54
rrl 1474734 n.1077G>T non_coding_transcript_exon_variant 0.61
rrl 1474736 n.1079C>T non_coding_transcript_exon_variant 0.61
rrl 1474749 n.1092C>T non_coding_transcript_exon_variant 0.64
rrl 1474751 n.1094G>A non_coding_transcript_exon_variant 0.64
rrl 1474753 n.1097delC non_coding_transcript_exon_variant 0.63
rrl 1474777 n.1120T>C non_coding_transcript_exon_variant 0.74
rrl 1474779 n.1122G>A non_coding_transcript_exon_variant 0.75
rrl 1474783 n.1126G>A non_coding_transcript_exon_variant 0.76
rrl 1474794 n.1137C>T non_coding_transcript_exon_variant 0.77
rrl 1474823 n.1166C>G non_coding_transcript_exon_variant 0.75
rrl 1474827 n.1170C>T non_coding_transcript_exon_variant 0.75
rrl 1474830 n.1173A>T non_coding_transcript_exon_variant 0.74
rrl 1474831 n.1174A>C non_coding_transcript_exon_variant 0.74
rrl 1474864 n.1207C>T non_coding_transcript_exon_variant 0.78
rrl 1474904 n.1247G>C non_coding_transcript_exon_variant 0.72
rrl 1474905 n.1248T>C non_coding_transcript_exon_variant 0.72
rrl 1474932 n.1275C>T non_coding_transcript_exon_variant 0.54
rrl 1474945 n.1288C>T non_coding_transcript_exon_variant 0.23
rrl 1475060 n.1404delC non_coding_transcript_exon_variant 0.2
rrl 1475063 n.1406A>T non_coding_transcript_exon_variant 0.2
rrl 1475065 n.1408G>A non_coding_transcript_exon_variant 0.2
rrl 1475067 n.1410A>G non_coding_transcript_exon_variant 0.2
rrl 1475068 n.1411A>G non_coding_transcript_exon_variant 0.2
rrl 1475076 n.1419C>A non_coding_transcript_exon_variant 0.2
rrl 1475078 n.1421T>C non_coding_transcript_exon_variant 0.2
rrl 1475079 n.1422T>C non_coding_transcript_exon_variant 0.2
rrl 1475081 n.1424C>T non_coding_transcript_exon_variant 0.2
rrl 1475090 n.1433A>T non_coding_transcript_exon_variant 0.23
rrl 1475093 n.1436C>T non_coding_transcript_exon_variant 0.23
rrl 1475104 n.1447T>G non_coding_transcript_exon_variant 0.24
rrl 1475108 n.1451C>T non_coding_transcript_exon_variant 0.24
rrl 1475111 n.1454G>A non_coding_transcript_exon_variant 0.24
rrl 1475114 n.1457C>T non_coding_transcript_exon_variant 0.23
rrl 1475116 n.1459G>A non_coding_transcript_exon_variant 0.23
rrl 1475119 n.1462C>T non_coding_transcript_exon_variant 0.24
rrl 1475124 n.1467A>C non_coding_transcript_exon_variant 0.23
rrl 1475649 n.1992A>G non_coding_transcript_exon_variant 0.28
rrl 1475655 n.1998T>G non_coding_transcript_exon_variant 0.28
rrl 1475657 n.2000A>G non_coding_transcript_exon_variant 0.28
rrl 1475659 n.2002G>A non_coding_transcript_exon_variant 0.37
rrl 1475672 n.2015C>T non_coding_transcript_exon_variant 0.59
rrl 1475673 n.2016T>C non_coding_transcript_exon_variant 0.59
rrl 1475686 n.2029C>T non_coding_transcript_exon_variant 0.22
rrl 1475699 n.2042C>T non_coding_transcript_exon_variant 0.77
rrl 1475722 n.2065G>T non_coding_transcript_exon_variant 0.79
rrl 1475753 n.2096C>T non_coding_transcript_exon_variant 0.81
rrl 1475869 n.2212C>A non_coding_transcript_exon_variant 0.9
rrl 1475881 n.2224T>C non_coding_transcript_exon_variant 0.9
rrl 1475883 n.2226A>C non_coding_transcript_exon_variant 0.89
rrl 1475884 n.2227A>G non_coding_transcript_exon_variant 0.89
rrl 1475898 n.2241A>G non_coding_transcript_exon_variant 0.9
rrl 1475899 n.2242G>A non_coding_transcript_exon_variant 0.9
rrl 1475916 n.2259C>G non_coding_transcript_exon_variant 0.92
rrl 1475943 n.2286G>A non_coding_transcript_exon_variant 0.91
rrl 1475952 n.2295A>G non_coding_transcript_exon_variant 0.9
rrl 1475963 n.2306G>A non_coding_transcript_exon_variant 0.88
rrl 1475970 n.2313C>T non_coding_transcript_exon_variant 0.85
rrl 1475975 n.2318C>T non_coding_transcript_exon_variant 0.84
rrl 1475977 n.2320A>G non_coding_transcript_exon_variant 0.82
rrl 1475978 n.2321C>T non_coding_transcript_exon_variant 0.82
rrl 1475988 n.2331A>G non_coding_transcript_exon_variant 0.81
rrl 1475997 n.2340A>G non_coding_transcript_exon_variant 0.77
rrl 1476001 n.2344T>C non_coding_transcript_exon_variant 0.76
rrl 1476044 n.2387T>G non_coding_transcript_exon_variant 0.17
rrl 1476045 n.2388G>T non_coding_transcript_exon_variant 0.17
rrl 1476046 n.2389G>T non_coding_transcript_exon_variant 0.17
rrl 1476047 n.2390G>C non_coding_transcript_exon_variant 0.16
rrl 1476049 n.2392C>T non_coding_transcript_exon_variant 0.16
rrl 1476130 n.2473G>A non_coding_transcript_exon_variant 0.13
rrl 1476131 n.2474C>T non_coding_transcript_exon_variant 0.23
rrl 1476164 n.2507A>G non_coding_transcript_exon_variant 0.69
rrl 1476165 n.2508T>A non_coding_transcript_exon_variant 0.68
rrl 1476194 n.2537A>G non_coding_transcript_exon_variant 0.66
rrl 1476200 n.2543A>T non_coding_transcript_exon_variant 0.66
rrl 1476201 n.2544C>T non_coding_transcript_exon_variant 0.66
rrl 1476214 n.2557G>T non_coding_transcript_exon_variant 0.76
rrl 1476215 n.2558C>T non_coding_transcript_exon_variant 0.76
rrl 1476221 n.2564T>C non_coding_transcript_exon_variant 0.77
rrl 1476224 n.2567A>G non_coding_transcript_exon_variant 0.77
rrl 1476245 n.2588C>T non_coding_transcript_exon_variant 0.81
rrl 1476250 n.2593C>G non_coding_transcript_exon_variant 0.8
rrl 1476252 n.2595T>G non_coding_transcript_exon_variant 0.8
rrl 1476255 n.2598A>G non_coding_transcript_exon_variant 0.8
rrl 1476256 n.2599A>G non_coding_transcript_exon_variant 0.8
rrl 1476257 n.2600G>C non_coding_transcript_exon_variant 0.8
rrl 1476260 n.2603A>G non_coding_transcript_exon_variant 0.8
rrl 1476281 n.2624T>C non_coding_transcript_exon_variant 0.78
rrl 1476308 n.2651G>T non_coding_transcript_exon_variant 0.65
rrl 1476311 n.2654G>C non_coding_transcript_exon_variant 0.63
rrl 1476312 n.2655T>C non_coding_transcript_exon_variant 0.66
rrl 1476337 n.2680C>T non_coding_transcript_exon_variant 0.81
rrl 1476359 n.2702C>G non_coding_transcript_exon_variant 0.82
rrl 1476381 n.2724G>C non_coding_transcript_exon_variant 0.84
rrl 1476428 n.2771C>T non_coding_transcript_exon_variant 0.86
rrl 1476429 n.2772A>T non_coding_transcript_exon_variant 0.86
rrl 1476481 n.2824T>C non_coding_transcript_exon_variant 0.85
rrl 1476506 n.2849T>C non_coding_transcript_exon_variant 0.81
rrl 1476515 n.2858C>T non_coding_transcript_exon_variant 0.79
rrl 1476524 n.2867C>T non_coding_transcript_exon_variant 0.72
rrl 1476525 n.2868A>G non_coding_transcript_exon_variant 0.7
rrl 1476530 n.2873C>T non_coding_transcript_exon_variant 0.69
rrl 1476536 n.2879G>A non_coding_transcript_exon_variant 0.7
rrl 1476538 n.2881A>G non_coding_transcript_exon_variant 0.71
rrl 1476539 n.2882A>G non_coding_transcript_exon_variant 0.71
rrl 1476540 n.2883C>T non_coding_transcript_exon_variant 0.71
rrl 1476547 n.2890C>T non_coding_transcript_exon_variant 0.72
rpsA 1833685 c.144G>T synonymous_variant 0.13
rpsA 1833694 c.153G>C synonymous_variant 0.15
rpsA 1833721 c.180A>G synonymous_variant 0.25
rpsA 1833727 c.186G>C synonymous_variant 0.24
rpsA 1833733 c.192C>G synonymous_variant 0.24
rpsA 1833734 p.Ala65Ser missense_variant 0.24
rpsA 1833742 c.201A>G synonymous_variant 0.24
rpsA 1833745 c.204G>C synonymous_variant 0.23
rpsA 1833748 c.207C>G synonymous_variant 0.24
rpsA 1833761 p.Val74Ile missense_variant 0.24
rpsA 1833764 p.Asp75Asn missense_variant 0.24
rpsA 1833770 p.Asn77Asp missense_variant 0.24
rpsA 1833773 p.Glu78Ser missense_variant 0.24
rpsA 1833781 c.240T>G synonymous_variant 0.24
rpsA 1833782 p.Ser81Ala missense_variant 0.24
rpsA 1833790 c.249T>C synonymous_variant 0.26
rpsA 1833793 c.252C>T synonymous_variant 0.26
rpsA 1833797 p.Val86Ile missense_variant 0.28
rpsA 1833802 c.261A>G synonymous_variant 0.31
rpsA 1833811 c.270G>C synonymous_variant 0.39
rpsA 1833829 c.288A>G synonymous_variant 0.44
rpsA 1833832 c.291G>A synonymous_variant 0.45
rpsA 1833838 c.297G>C synonymous_variant 0.47
rpsA 1833841 c.300C>G synonymous_variant 0.48
rpsA 1833856 c.315A>G synonymous_variant 0.51
rpsA 1833862 c.321G>C synonymous_variant 0.53
rpsA 1833874 c.333T>C synonymous_variant 0.53
rpsA 1833884 p.Thr115Asp missense_variant 0.51
rpsA 1833893 p.Ala118Lys missense_variant 0.49
rpsA 1833896 p.Leu119Ile missense_variant 0.49
rpsA 1833905 p.Lys122Glu missense_variant 0.49
rpsA 1833912 p.Glu124Gly missense_variant 0.49
rpsA 1833915 p.Ala125Val missense_variant 0.5
rpsA 1833922 p.Lys127Asn missense_variant 0.54
rpsA 1833928 c.387G>C synonymous_variant 0.57
rpsA 1833949 c.408T>C synonymous_variant 0.62
rpsA 1833955 c.414G>C synonymous_variant 0.62
rpsA 1833970 c.429G>T synonymous_variant 0.63
rpsA 1833973 c.432G>T synonymous_variant 0.63
rpsA 1833979 c.438T>C synonymous_variant 0.63
rpsA 1833991 c.450C>G synonymous_variant 0.58
rpsA 1833997 c.456G>C synonymous_variant 0.55
rpsA 1834000 c.459G>C synonymous_variant 0.56
rpsA 1834009 c.468C>T synonymous_variant 0.54
rpsA 1834012 c.471G>C synonymous_variant 0.53
rpsA 1834015 c.474G>C synonymous_variant 0.53
rpsA 1834021 c.480C>T synonymous_variant 0.51
rpsA 1834025 p.Gln162Ala missense_variant 0.52
rpsA 1834030 c.489C>G synonymous_variant 0.52
rpsA 1834040 p.Lys167Gln missense_variant 0.54
rpsA 1834043 p.Glu168Gln missense_variant 0.55
rpsA 1834046 p.Ile169Leu missense_variant 0.54
rpsA 1834069 c.528G>C synonymous_variant 0.51
rpsA 1834090 c.549G>C synonymous_variant 0.37
rpsA 1834096 c.555G>C synonymous_variant 0.26
rpsA 1834099 c.558C>G synonymous_variant 0.23
rpsA 1834105 c.564C>T synonymous_variant 0.2
rpsA 1834108 c.567C>G synonymous_variant 0.17
rpsA 1834486 p.Glu315Asp missense_variant 0.2
rpsA 1834489 c.948T>C synonymous_variant 0.21
rpsA 1834522 c.981C>T synonymous_variant 0.24
rpsA 1834523 p.Glu328Gln missense_variant 0.24
rpsA 1834528 c.987T>C synonymous_variant 0.25
rpsA 1834534 c.993C>G synonymous_variant 0.26
rpsA 1834537 p.Glu332Asp missense_variant 0.25
rpsA 1834538 p.Val333Met missense_variant 0.24
rpsA 1834541 p.Pro334Ala missense_variant 0.25
rpsA 1834546 p.Asp335Glu missense_variant 0.24
rpsA 1834552 c.1011G>C synonymous_variant 0.24
rpsA 1834555 c.1014T>C synonymous_variant 0.24
rpsA 1834556 p.Ala339Ser missense_variant 0.24
rpsA 1834567 p.Asp342Glu missense_variant 0.24
rpsA 1834570 p.Asp343Glu missense_variant 0.24
rpsA 1834571 p.Ala344Leu missense_variant 0.24
rpsA 1834574 p.Met345Phe missense_variant 0.24
rpsA 1834603 p.Glu354Asp missense_variant 0.26
rpsA 1834609 c.1068T>C synonymous_variant 0.24
rpsA 1834612 c.1071G>C synonymous_variant 0.24
rpsA 1834619 c.1078T>C synonymous_variant 0.23
rpsA 1834633 c.1092A>G synonymous_variant 0.16
rpsA 1834639 c.1098T>C synonymous_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
PPE35 2170558 p.Ala19Pro missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
eis 2714523 p.His270Gln missense_variant 1.0
Rv2752c 3065715 c.477T>C synonymous_variant 1.0
ald 3086788 c.-32T>C upstream_gene_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
rpoA 3877818 c.690A>G synonymous_variant 0.16
rpoA 3877821 c.687C>G synonymous_variant 0.16
rpoA 3877829 p.Val227Ile missense_variant 0.16
rpoA 3877830 c.678C>T synonymous_variant 0.16
rpoA 3877836 c.672A>G synonymous_variant 0.16
rpoA 3877839 c.669G>C synonymous_variant 0.16
rpoA 3877842 c.666A>T synonymous_variant 0.18
rpoA 3877856 c.652T>C synonymous_variant 0.16
rpoA 3877860 c.648C>G synonymous_variant 0.15
rpoA 3877869 p.Lys213Thr missense_variant 0.15
rpoA 3877875 c.633T>C synonymous_variant 0.15
rpoA 3877881 c.627G>C synonymous_variant 0.15
rpoA 3877886 p.Leu208Met missense_variant 0.14
rpoA 3877887 c.621G>C synonymous_variant 0.14
rpoA 3877890 c.618C>T synonymous_variant 0.15
rpoA 3877900 c.607_608delAGinsTC synonymous_variant 0.14
rpoA 3877905 c.603A>C synonymous_variant 0.15
rpoA 3877908 p.Asn200Glu missense_variant 0.15
rpoA 3877931 p.Ile193Val missense_variant 0.12
clpC1 4039670 p.Val345Ile missense_variant 0.15
clpC1 4039691 c.1014G>C synonymous_variant 0.29
clpC1 4039697 c.1008C>A synonymous_variant 0.28
clpC1 4039714 p.Tyr331His missense_variant 0.38
clpC1 4039724 c.981A>G synonymous_variant 0.42
clpC1 4039727 c.978C>T synonymous_variant 0.43
clpC1 4039730 c.975C>G synonymous_variant 0.43
clpC1 4039748 c.957G>C synonymous_variant 0.46
clpC1 4039751 c.954A>G synonymous_variant 0.45
clpC1 4039757 c.948A>G synonymous_variant 0.44
clpC1 4039760 c.945T>C synonymous_variant 0.45
clpC1 4039766 c.939T>C synonymous_variant 0.47
clpC1 4039769 c.936C>G synonymous_variant 0.48
clpC1 4039773 p.Lys311Met missense_variant 0.48
clpC1 4039775 c.930G>C synonymous_variant 0.47
clpC1 4039778 c.927A>G synonymous_variant 0.48
clpC1 4039781 c.924G>C synonymous_variant 0.49
clpC1 4039811 c.894C>A synonymous_variant 0.48
clpC1 4039817 c.888A>T synonymous_variant 0.48
clpC1 4039820 c.885T>G synonymous_variant 0.45
clpC1 4039823 c.882T>C synonymous_variant 0.46
clpC1 4039829 c.874_876delTTGinsCTC synonymous_variant 0.4
clpC1 4039832 c.873C>G synonymous_variant 0.4
clpC1 4039838 p.Leu289Ile missense_variant 0.42
clpC1 4039850 c.855T>C synonymous_variant 0.48
clpC1 4039865 c.840T>C synonymous_variant 0.43
clpC1 4039873 p.Thr278Ser missense_variant 0.42
clpC1 4039874 p.Asn277Lys missense_variant 0.42
clpC1 4039904 c.801A>G synonymous_variant 0.51
clpC1 4039913 c.792C>T synonymous_variant 0.51
clpC1 4039916 c.789T>C synonymous_variant 0.51
clpC1 4039928 c.775_777delAGCinsTCT synonymous_variant 0.49
clpC1 4039931 c.774T>C synonymous_variant 0.48
clpC1 4039934 c.771G>C synonymous_variant 0.5
clpC1 4039940 c.765G>C synonymous_variant 0.49
clpC1 4039946 c.759A>C synonymous_variant 0.53
clpC1 4039949 c.756G>C synonymous_variant 0.51
clpC1 4039952 c.753T>C synonymous_variant 0.52
clpC1 4039967 p.Gln246His missense_variant 0.6
clpC1 4039988 c.717C>G synonymous_variant 0.59
clpC1 4039991 c.714G>C synonymous_variant 0.58
clpC1 4039994 p.Glu237Asp missense_variant 0.57
clpC1 4040001 p.His235Arg missense_variant 0.58
clpC1 4040015 c.690G>C synonymous_variant 0.57
clpC1 4040021 c.684A>T synonymous_variant 0.53
clpC1 4040024 c.681A>G synonymous_variant 0.51
clpC1 4040030 c.675C>G synonymous_variant 0.47
clpC1 4040033 c.672G>C synonymous_variant 0.45
clpC1 4040051 c.654C>G synonymous_variant 0.41
clpC1 4040090 c.615T>G synonymous_variant 0.37
clpC1 4040093 c.612C>G synonymous_variant 0.36
clpC1 4040096 c.609G>C synonymous_variant 0.36
clpC1 4040108 c.597G>C synonymous_variant 0.29
clpC1 4040114 p.Ile197Met missense_variant 0.12
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4243324 p.Val31Ala missense_variant 1.0
embB 4247548 c.1035C>T synonymous_variant 1.0
aftB 4268928 c.-92C>T upstream_gene_variant 1.0
aftB 4269375 c.-539G>A upstream_gene_variant 1.0
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408317 c.-115T>C upstream_gene_variant 1.0