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 |
|
A1 F1 I1 R1
|
152 |
24.9 |
2083062 |
91.6% |
1908084 |
109.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
AM260480 |
1,326,746 |
+G |
intergenic (+47/‑123) |
h16_B1172 → / → h16_B1173 |
Amidase/MFS transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | AM260480 | 1,326,745 | 1 | . | G | 100.0%
| 106.9
/ NA
| 29 | intergenic (+46/‑124) | h16_B1172/h16_B1173 | Amidase/MFS transporter |
| Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (14/15); total (14/15) |
GATACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCC‑GACAC‑GCGGCGACAA‑GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCA > AM260480/1326624‑1326869
|
gATACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGAGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACAc‑ggcggc > 1:895245/1‑129 (MQ=255)
aTACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACAc‑ggcggc < 2:697519/133‑6 (MQ=255)
tACGGCTGGCTTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGa < 2:683027/134‑1 (MQ=255)
ccTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACAc‑ggcggc > 2:817022/1‑118 (MQ=255)
ccTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACAc‑ggcggc < 1:817022/123‑6 (MQ=255)
cGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAgcg < 2:895245/134‑1 (MQ=255)
gCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATATGCGCGCGCCGGAACGACGTTTTATCGCTGCGCTACAAACGCCCGCCGGACACGGCGGCGACAAGGCCGCGGACATAGCGCGa > 1:858869/1‑134 (MQ=255)
aGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGAc > 2:687715/1‑133 (MQ=255)
ggCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGTACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACaa > 1:249259/1‑134 (MQ=255)
cgcgcgcgcCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGa > 1:275542/1‑133 (MQ=255)
cgcgcgcCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAAc < 2:865257/134‑1 (MQ=255)
gcgcgcCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAAc > 2:1039752/1‑133 (MQ=255)
gcgcgcCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACg < 1:687715/134‑1 (MQ=255)
gcgcgcCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACg < 1:612727/134‑1 (MQ=255)
cGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATgg < 1:1039752/133‑1 (MQ=255)
ggAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACag > 1:39446/1‑132 (MQ=255)
cgcgcCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACaaa < 2:103694/105‑1 (MQ=255)
cgcgcCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACaaa > 1:103694/1‑105 (MQ=255)
cgcgcCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAAt < 2:545598/131‑1 (MQ=255)
cgcgcCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAAt > 1:545598/1‑131 (MQ=255)
cGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAAt > 1:830660/1‑126 (MQ=255)
cGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAAt < 2:830660/126‑1 (MQ=255)
cGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAAt > 1:669022/1‑134 (MQ=255)
ggAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACg > 1:920560/1‑86 (MQ=255)
ggAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACg < 2:920560/86‑1 (MQ=255)
gacgTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCca < 2:249259/134‑1 (MQ=255)
ctctACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCt < 2:669022/133‑1 (MQ=255)
aCAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGc < 2:682731/104‑1 (MQ=255)
aCAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGc > 1:682731/1‑104 (MQ=255)
gcccgccgGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCa < 2:275542/134‑1 (MQ=255)
ccgccgGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCa > 2:67653/1‑91 (MQ=255)
ccgccgGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCa < 1:67653/91‑1 (MQ=255)
|
GATACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCC‑GACAC‑GCGGCGACAA‑GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCA > AM260480/1326624‑1326869
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
BRESEQ :: bam2aln output
CACCGAACCCGTGCTGATACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCC‑GACAC‑GCGGCGACAA‑GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGC > AM260480/1326609‑1326877
|
CACCGAACCCGTGCTGATACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGAGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCG > GWNJ‑0478:712:GW2002102894th:2:2207:1616:77742/1‑150 (MQ=60)
GATACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGAC < GWNJ‑0478:712:GW2002102894th:2:2202:3654:74331/149‑1 (MQ=60)
GGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATATGCGCGCGCCGGAACGACGTTTTATCGCTGCGCTACAAACGCCCGCCGGACACGGCGGCGACAAGGCCGCGGACATAGCGCGAC > GWNJ‑0478:712:GW2002102894th:2:2209:11429:50286/1‑150 (MQ=60)
CTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGTACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAAC > GWNJ‑0478:712:GW2002102894th:2:1116:4266:44406/1‑150 (MQ=60)
GCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAA > GWNJ‑0478:712:GW2002102894th:2:1203:3218:30868/1‑149 (MQ=60)
CGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGA < GWNJ‑0478:712:GW2002102894th:2:2110:10487:86745/150‑1 (MQ=60)
CGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGA < GWNJ‑0478:712:GW2002102894th:2:2106:7812:24294/150‑1 (MQ=60)
TTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGT > GWNJ‑0478:712:GW2002102894th:2:1105:9566:73574/1‑148 (MQ=60)
TCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAG < GWNJ‑0478:712:GW2002102894th:2:2216:7698:91054/149‑1 (MQ=60)
GCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:1108:11614:4332/1‑135 (MQ=60)
GCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCC > GWNJ‑0478:712:GW2002102894th:2:2103:5827:60054/1‑150 (MQ=60)
GGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATT > GWNJ‑0478:712:GW2002102894th:2:2111:15095:77169/1‑150 (MQ=60)
GGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATT > GWNJ‑0478:712:GW2002102894th:2:2204:7772:67706/1‑150 (MQ=60)
GAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGActgtctcttatacacatctccgagcccacgagac > GWNJ‑0478:712:GW2002102894th:2:2211:7276:35405/1‑116 (MQ=60)
gtgggctcggagatgtgtataagagacaGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCC < GWNJ‑0478:712:GW2002102894th:2:1104:19959:70460/122‑1 (MQ=60)
TTTTATCGCTGCTCTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCctgtctcttatacac > GWNJ‑0478:712:GW2002102894th:2:2110:2336:57336/1‑134 (MQ=60)
CTACAAACGCCCGCCGGACACGGCGGCGACAAGGTCGCGGACATAGCGCGACAACATCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATctg > GWNJ‑0478:712:GW2002102894th:2:1209:13036:27917/1‑147 (MQ=60)
|
CACCGAACCCGTGCTGATACGGCTGGCCTATGCGGCCGAGCAGGCCTTGCGCGCGCGCCGGCCGCCGCATTCGACGCCGGCGCTGGAATAGGCGCGCGCCGGAACGACGTTTTATCGCTGCTCTACAAACGCCCGCC‑GACAC‑GCGGCGACAA‑GTCGCGGACATAGCGCGACAACCTCGAAACGAGGAGGAGACAAAGATGGGCGCAGAAACAGTAGTTCAATCGCCGAATTCCCCACAGCAGCATGAGCTCGACCGGGCCATGGATGGC > AM260480/1326609‑1326877
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
