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 |
744,046 |
A→G |
37.3% |
T233A (ACC→GCC) |
nagZ → |
beta N‑acetyl‑glucosaminidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 744,046 | 0 | A | G | 37.3%
| 27.5
/ 35.7
| 59 | T233A (ACC→GCC) | nagZ | beta N‑acetyl‑glucosaminidase |
| Reads supporting (aligned to +/- strand): ref base A (26/11); new base G (9/13); total (35/24) |
| Fisher's exact test for biased strand distribution p-value = 3.23e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.70e-02 |
CTACAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGATTTATCGATGGA > minE/743994‑744107
|
cTACAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAgg < 1:3286625/68‑1 (MQ=255)
cTACAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAgg < 1:871351/68‑1 (MQ=255)
cTACAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAgg < 1:1479140/68‑1 (MQ=255)
cTACAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAgg < 1:2839318/68‑1 (MQ=255)
cAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACt > 1:1516556/1‑69 (MQ=255)
cAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACt > 1:1759735/1‑69 (MQ=255)
cAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACt > 1:2300647/1‑69 (MQ=255)
cAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACt > 1:3357488/1‑69 (MQ=255)
cAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACt > 1:1319731/1‑69 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:3399937/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:637812/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:2341893/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:2083788/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:656377/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:3027927/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:203900/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:201991/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:670702/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:1421375/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:1621789/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:1487598/65‑1 (MQ=255)
gTGATGTTGATCCGCGTCCGGCGAGCGCTTCTCCCTAATGGCTGAAAGCCGTTTTGCGTCAGGaa < 1:62069/65‑1 (MQ=255)
aTGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGtt > 1:3311075/1‑69 (MQ=255)
aTGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGtt > 1:57566/1‑69 (MQ=255)
aTGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGtt > 1:1040451/1‑69 (MQ=255)
aTGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGtt > 1:2465361/1‑69 (MQ=255)
aTGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGtt > 1:2604424/1‑69 (MQ=255)
aTGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTAATGGCTGAAAACCGTTTTGCGTCAGGAACTGGGtt > 1:1646673/1‑69 (MQ=255)
ttGATGCGCGTCCGGCGAGCGGTTCTCACTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTg > 1:2590086/1‑69 (MQ=255)
ttGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTg > 1:855217/1‑69 (MQ=255)
ttGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTg > 1:3257963/1‑69 (MQ=255)
ttGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTg > 1:306386/1‑69 (MQ=255)
ttGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTg > 1:3387991/1‑69 (MQ=255)
ttGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTg > 1:1511340/1‑69 (MQ=255)
ttGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTg > 1:2150274/1‑69 (MQ=255)
tGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGAATTGGGTTTTGa > 1:2493275/1‑69 (MQ=255)
tGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGAATTGGGTTTTGa > 1:2663203/1‑69 (MQ=255)
tGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGAATTGGGTTTTGa > 1:235777/1‑69 (MQ=255)
tGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGAATTGGGTTTTGa > 1:3027576/1‑69 (MQ=255)
tGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGAATTGGGTTTTGa > 1:1638043/1‑69 (MQ=255)
tGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGAATTGGGTTTTGa > 1:313918/1‑69 (MQ=255)
tGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGAATTGGGTTTTGa > 1:1751925/1‑69 (MQ=255)
tGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGAATTGGGTTTTGa > 1:1110897/1‑69 (MQ=255)
tGATCCGCGTCCGGCGAGCGCTTCTCCCTACTGGCTGAAAGCCGTTTTGCGTCAGGAATTGGGGTTTGa > 1:3112835/1‑69 (MQ=255)
ctcCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGAtt < 1:992559/69‑1 (MQ=255)
ctcCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGAtt < 1:2546332/69‑1 (MQ=255)
ctcCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGAtt < 1:2471601/69‑1 (MQ=255)
ctcCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGAtt < 1:2183539/69‑1 (MQ=255)
ctcCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGAtt < 1:1972416/69‑1 (MQ=255)
ctcCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGAtt < 1:1968764/69‑1 (MQ=255)
ctcCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGAtt < 1:1444102/69‑1 (MQ=255)
cTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTg > 1:2202536/1‑46 (MQ=255)
cTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGATTTATCGa > 1:403161/1‑68 (MQ=255)
cTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGATTTATCGa > 1:2193645/1‑68 (MQ=255)
cTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGATTTATCGa > 1:206589/1‑68 (MQ=255)
gCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGATTTATCGATGGa > 1:3230358/1‑69 (MQ=255)
gCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGATTTATCGATGGa > 1:284141/1‑69 (MQ=255)
gCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGATTTATCGATGGa > 1:2009447/1‑69 (MQ=255)
gCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGATTTATCGATGGa > 1:698391/1‑69 (MQ=255)
|
CTACAGTGATGTTGATCCGCGTCCGGCGAGCGGTTCTCCCTACTGGCTGAAAACCGTTTTGCGTCAGGAACTGGGTTTTGACGGCGTGATTTTCTCTGACGATTTATCGATGGA > minE/743994‑744107
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
