Sample Resequencing Stats
Note: The mutation counts shown below represent unfiltered mutation sets.
| ALE, Flask, Isolate |
Predicted Mutations |
Mean Coverage |
Total Reads |
Percent Mapped |
Mapped Reads |
Average Read Length |
|
A0 F0 I1 R1
|
61 |
39.0 |
4165548 |
97.4% |
4057243 |
49.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_017635 |
3,655,775 |
G→A |
S431F (TCT→TTT) |
secY ← |
preprotein translocase subunit SecY |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_017635 | 3,655,775 | 0 | G | A | 100.0%
| 226.2
/ NA
| 68 | S431F (TCT→TTT) | secY | preprotein translocase subunit SecY |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (12/56); total (12/56) |
CGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAGACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATAA > NC_017635/3655728‑3655820
|
cGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAAc < 1:1952464/50‑1 (MQ=255)
cGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAAc < 2:2000178/50‑1 (MQ=255)
cGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAAc < 2:1860164/50‑1 (MQ=255)
gACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACt < 1:1010827/50‑1 (MQ=255)
gACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACt > 2:144920/1‑50 (MQ=255)
aCCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTc < 1:273713/50‑1 (MQ=255)
ccAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCa < 1:1242117/50‑1 (MQ=255)
ccAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCa < 1:1253501/50‑1 (MQ=255)
ccAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCa < 1:942855/50‑1 (MQ=255)
cAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCa > 2:740377/1‑49 (MQ=255)
cAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCAt < 2:1511250/50‑1 (MQ=255)
aTTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATac < 1:927148/50‑1 (MQ=255)
ttATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATact < 2:727383/50‑1 (MQ=255)
ttATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATact < 2:1906565/50‑1 (MQ=255)
ttATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATact < 1:291388/50‑1 (MQ=255)
tATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATact > 2:1091852/1‑49 (MQ=255)
aTCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATactg < 1:836253/49‑1 (MQ=255)
tCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATactgac < 2:566232/50‑1 (MQ=255)
cGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATactgact > 2:703640/1‑50 (MQ=255)
cGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATactgact > 1:48328/1‑50 (MQ=255)
ggCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATactgactg < 2:1250162/50‑1 (MQ=255)
ggCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATactgactg > 1:362761/1‑50 (MQ=255)
ggCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATactgactg < 1:7694/50‑1 (MQ=255)
ggCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATactgactg < 1:1062486/50‑1 (MQ=255)
ggCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATactgactg < 1:1436063/50‑1 (MQ=255)
ccGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGa < 1:28792/50‑1 (MQ=255)
ccGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGa > 1:1561333/1‑50 (MQ=255)
cGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGa > 1:1965886/1‑49 (MQ=255)
cGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACCGACTGGAc < 1:1129199/50‑1 (MQ=39)
gTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGAca < 2:357557/50‑1 (MQ=255)
gTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGAca < 1:1332168/50‑1 (MQ=255)
aGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGAcat > 2:1704626/1‑49 (MQ=255)
gCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGAcatca < 2:932628/50‑1 (MQ=255)
tCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACAtcatca < 1:1605316/48‑1 (MQ=255)
tCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACAtcatca < 2:305215/48‑1 (MQ=255)
tCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACAtcatca < 1:1130845/48‑1 (MQ=255)
cAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCaga < 2:141551/49‑1 (MQ=255)
aGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGt < 1:336790/50‑1 (MQ=255)
ggTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGtt < 2:253145/50‑1 (MQ=255)
gTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGttt < 2:350461/50‑1 (MQ=255)
ttCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTg < 1:1020845/50‑1 (MQ=255)
ttCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTg < 2:1612839/50‑1 (MQ=255)
cGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGc < 1:754398/49‑1 (MQ=255)
cGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGc < 2:1734426/49‑1 (MQ=255)
cGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCa > 1:764267/1‑50 (MQ=255)
gCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCAc < 1:877906/50‑1 (MQ=255)
ccTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACt > 2:584188/1‑50 (MQ=255)
ccTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACt < 2:1401464/50‑1 (MQ=255)
cttcttCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACtt < 2:496992/50‑1 (MQ=255)
cttcttCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACtt < 1:1866373/50‑1 (MQ=255)
cttcttCAACGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACtt < 1:1489469/50‑1 (MQ=255)
cttcAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTg < 1:715820/48‑1 (MQ=255)
cttcAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTg < 2:1985388/48‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAg < 1:595645/47‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAg < 1:1296488/47‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGcc < 2:2025231/49‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGcc < 1:628981/49‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGcc < 1:1838153/49‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGcc < 2:1643361/49‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGcc < 1:1469246/49‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGcc < 2:1219185/49‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGcc < 1:1386416/49‑1 (MQ=255)
cAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGcc < 2:1405021/49‑1 (MQ=255)
aaTGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCa < 1:1936429/49‑1 (MQ=255)
aTGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCAt > 2:1976742/1‑49 (MQ=255)
tGCAAACTCATACTGACTGGACATCATCAGAGTTTGCat < 1:817043/39‑2 (MQ=39)
tGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATaa < 1:1426669/50‑1 (MQ=255)
tGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATaa < 1:1341011/50‑1 (MQ=255)
|
CGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAGACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATAA > NC_017635/3655728‑3655820
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
GGCGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAGACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATAAAGTCC > NC_017635/3655726‑3655825
|
GGCGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAA > M01420:85:000000000‑AC936:1:2110:20627:22204/1‑50 (MQ=60)
GCGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAAC < M01420:85:000000000‑AC936:1:2113:13180:11458/51‑1 (MQ=60)
CGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACT < M01420:85:000000000‑AC936:1:1114:24642:19571/51‑1 (MQ=60)
GACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTC < M01420:85:000000000‑AC936:1:1104:3555:19333/51‑1 (MQ=60)
ACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCA < M01420:85:000000000‑AC936:1:2103:23833:23262/51‑1 (MQ=60)
ACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCA < M01420:85:000000000‑AC936:1:2103:14392:28965/51‑1 (MQ=60)
ACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCA < M01420:85:000000000‑AC936:1:1113:26420:21445/51‑1 (MQ=60)
AATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATAC < M01420:85:000000000‑AC936:1:1113:25281:16603/51‑1 (MQ=60)
ATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACT < M01420:85:000000000‑AC936:1:1104:7403:25491/51‑1 (MQ=60)
TATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTG < M01420:85:000000000‑AC936:1:1112:28088:11473/50‑1 (MQ=60)
CGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTG > M01420:85:000000000‑AC936:1:1101:15204:18655/1‑51 (MQ=60)
CGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTG < M01420:85:000000000‑AC936:1:2106:15115:14299/51‑1 (MQ=60)
CGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTG < M01420:85:000000000‑AC936:1:2101:4827:13098/51‑1 (MQ=60)
CGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTG < M01420:85:000000000‑AC936:1:1101:21461:5922/51‑1 (MQ=60)
GGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGG > M01420:85:000000000‑AC936:1:1105:16420:24262/1‑51 (MQ=60)
GCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGA < M01420:85:000000000‑AC936:1:1101:10521:12879/51‑1 (MQ=60)
CCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGAC > M01420:85:000000000‑AC936:1:2108:25868:7159/1‑51 (MQ=60)
CCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACCGACTGGAC < M01420:85:000000000‑AC936:1:2102:28536:11213/51‑1 (MQ=60)
CGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACA < M01420:85:000000000‑AC936:1:2105:12744:4391/51‑1 (MQ=60)
CGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGAC > M01420:85:000000000‑AC936:1:2113:19730:15348/1‑50 (MQ=60)
TTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCA < M01420:85:000000000‑AC936:1:2102:10887:11738/49‑1 (MQ=60)
TTCAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCA < M01420:85:000000000‑AC936:1:2108:12438:20663/49‑1 (MQ=60)
CAGGTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGT < M01420:85:000000000‑AC936:1:1105:22936:15977/51‑1 (MQ=60)
GTTCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTG < M01420:85:000000000‑AC936:1:1114:6799:22836/51‑1 (MQ=60)
TCGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGC < M01420:85:000000000‑AC936:1:1111:28056:8746/50‑1 (MQ=60)
CGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCAC < M01420:85:000000000‑AC936:1:1112:23345:24679/51‑1 (MQ=60)
CGCCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCAC > M01420:85:000000000‑AC936:1:1111:23021:11899/1‑51 (MQ=60)
CCTTCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTT < M01420:85:000000000‑AC936:1:2112:8150:8602/51‑1 (MQ=60)
CCTTCTTCAACGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTT < M01420:85:000000000‑AC936:1:2107:5983:7849/51‑1 (MQ=60)
TCTTCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTG < M01420:85:000000000‑AC936:1:1110:10900:19274/49‑1 (MQ=60)
TCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCC < M01420:85:000000000‑AC936:1:1109:5051:15176/50‑1 (MQ=60)
TCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCC < M01420:85:000000000‑AC936:1:2111:17176:23009/50‑1 (MQ=60)
TCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCC < M01420:85:000000000‑AC936:1:2105:16455:21787/50‑1 (MQ=60)
TCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCC < M01420:85:000000000‑AC936:1:2106:15502:24916/50‑1 (MQ=60)
TCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAG < M01420:85:000000000‑AC936:1:1109:11028:3803/48‑1 (MQ=60)
TCAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAG < M01420:85:000000000‑AC936:1:2104:14291:16975/48‑1 (MQ=60)
CAATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCA < M01420:85:000000000‑AC936:1:2113:10605:6207/50‑1 (MQ=60)
ATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCAT < M01420:85:000000000‑AC936:1:1112:21182:4643/40‑1 (MQ=60)
ATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATAA < M01420:85:000000000‑AC936:1:2106:3515:11483/51‑1 (MQ=60)
ATGCAAACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATAA < M01420:85:000000000‑AC936:1:2105:13370:7863/51‑1 (MQ=60)
AACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATAAAGTCC > M01420:85:000000000‑AC936:1:1101:16153:23386/1‑51 (MQ=60)
AACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATAAAGTCC > M01420:85:000000000‑AC936:1:2101:22370:26513/1‑51 (MQ=60)
|
GGCGACCAATTATCGGCCGTAGCCTTTCAGGTTCGCCTTCTTCAATGCAGACTCATACTGACTGGACATCATCAGAGTTTGCACTTGAGCCATAAAGTCC > NC_017635/3655726‑3655825
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
