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 |
|
A2 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,684,790 |
A→T |
23.9% |
V93V (GTA→GTT) |
ompR → |
DNA‑binding response regulator in two‑component regulatory system with EnvZ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,684,790 | 0 | A | T | 23.9%
| 114.1
/ 33.7
| 71 | V93V (GTA→GTT) | ompR | DNA‑binding response regulator in two‑component regulatory system with EnvZ |
| Reads supporting (aligned to +/- strand): ref base A (26/28); new base T (9/8); total (35/36) |
| Fisher's exact test for biased strand distribution p-value = 7.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTAGTCAGAGCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTGAACTGCTGGCCCGT > minE/2684722‑2684856
|
cGTAGTCAGAGCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTa > 1:923804/1‑69 (MQ=255)
cGTAGTCAGAGCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTa > 1:1399457/1‑69 (MQ=255)
gTCAGAGCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGcc < 1:497190/69‑1 (MQ=255)
gTCAGAGCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGcc < 1:2246452/69‑1 (MQ=255)
tCAGAGCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGcc < 1:1706365/68‑1 (MQ=255)
agagCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGcc > 1:403419/1‑66 (MQ=255)
agCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGga < 1:1075972/68‑1 (MQ=255)
agCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGga < 1:55499/68‑1 (MQ=255)
agCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGga < 1:477436/68‑1 (MQ=255)
agCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGga < 1:445628/68‑1 (MQ=255)
agCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGga < 1:1582640/68‑1 (MQ=255)
agCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGga < 1:2541946/68‑1 (MQ=255)
agCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGga < 1:2113942/68‑1 (MQ=255)
agCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGga < 1:2140643/68‑1 (MQ=255)
cAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGAt > 1:2098785/1‑69 (MQ=255)
cAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGAt > 1:992601/1‑69 (MQ=255)
cAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGAt > 1:2213270/1‑69 (MQ=255)
cAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGAt > 1:3082571/1‑69 (MQ=255)
cAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGAt > 1:1787219/1‑69 (MQ=255)
cAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGAt > 1:17554/1‑69 (MQ=255)
atccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGAtt > 1:319248/3‑68 (MQ=255)
atccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTg > 1:353369/3‑69 (MQ=255)
atccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTg > 1:2569505/3‑69 (MQ=255)
atccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTg > 1:1323369/3‑69 (MQ=255)
atccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTg > 1:333732/3‑69 (MQ=255)
atccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTg > 1:2242817/3‑69 (MQ=255)
atccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTg > 1:774054/3‑69 (MQ=255)
atccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTg > 1:3124433/3‑69 (MQ=255)
atccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTg > 1:2964080/3‑69 (MQ=255)
tccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTgg < 1:2760921/68‑1 (MQ=255)
tccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTgg < 1:1670177/68‑1 (MQ=255)
tccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTgg < 1:1936554/68‑1 (MQ=255)
tccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTgg < 1:608697/68‑1 (MQ=255)
tccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTgg < 1:3426193/68‑1 (MQ=255)
tccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTgg < 1:1813433/68‑1 (MQ=255)
tccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTgg < 1:1526853/68‑1 (MQ=255)
ccGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTTGGCCTGGAGATTgg < 1:2286090/68‑1 (MQ=255)
cATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCt > 1:1784748/1‑61 (MQ=255)
cATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTa > 1:562898/1‑69 (MQ=255)
cATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTa > 1:2978521/1‑69 (MQ=255)
cATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTa > 1:1220448/1‑69 (MQ=255)
cATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTa > 1:951256/1‑69 (MQ=255)
cATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTa > 1:1550148/1‑69 (MQ=255)
cATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTa > 1:100692/1‑69 (MQ=255)
cATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTa > 1:2125889/1‑69 (MQ=255)
cATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTa < 1:2585770/69‑1 (MQ=255)
aTTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTa < 1:2452917/68‑1 (MQ=255)
gTGACGGCGAAAGGGGAAGAAGTGGACCGTCTCGTAGGCCTGGAGATTGGCGCTGACGACTACATTcc > 1:1497353/1‑68 (MQ=255)
gTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTcg > 1:143929/1‑67 (MQ=255)
gTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTcc > 1:2382725/1‑68 (MQ=255)
gTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTcc > 1:798507/1‑68 (MQ=255)
gTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTcc > 1:485589/1‑68 (MQ=255)
gTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTcc > 1:3346302/1‑68 (MQ=255)
gTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTcc > 1:400005/1‑68 (MQ=255)
gTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTcc > 1:1583541/1‑68 (MQ=255)
gTGAAGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTcc > 1:813434/1‑68 (MQ=255)
cGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGga < 1:1927226/37‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:166775/69‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:1806458/69‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:7318/69‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:953647/69‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:2948016/69‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:1437434/69‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:2585925/69‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:2837398/69‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:2995112/69‑1 (MQ=255)
aagTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTg < 1:1803899/69‑1 (MQ=255)
cGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTGAActgctg < 1:2826654/69‑1 (MQ=255)
tCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTGAACTGCTGGccc < 1:2658925/69‑1 (MQ=255)
tCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTGAACTGCTGGccc < 1:3308756/69‑1 (MQ=255)
tCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTGAACTGCTGGccc < 1:2910178/69‑1 (MQ=255)
gTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTGAACTGCTGGCCCGt > 1:716299/1‑69 (MQ=255)
gTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTGAACTGCTGGCCCGt > 1:1939645/1‑69 (MQ=255)
|
CGTAGTCAGAGCAACCCGATGCCGATCATTATGGTGACGGCGAAAGGGGAAGAAGTGGACCGTATCGTAGGCCTGGAGATTGGCGCTGACGACTACATTCCAAAACCGTTTAACCCGCGTGAACTGCTGGCCCGT > minE/2684722‑2684856
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
