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 |
820,100 |
C→T |
54.0% |
A189A (GCC→GCT) |
ychA → |
predicted transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 820,100 | 0 | C | T | 54.0%
| 8.6
/ 73.8
| 87 | A189A (GCC→GCT) | ychA | predicted transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base C (4/36); new base T (29/18); total (33/54) |
| Fisher's exact test for biased strand distribution p-value = 5.55e-07 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAC > minE/820038‑820166
|
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAATCCTCGtt < 1:2242342/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:3339150/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:2371857/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:2421606/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:1839197/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:1799965/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:243856/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:357265/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:2280810/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:3334932/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:2741982/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:286520/68‑1 (MQ=255)
gAAGACCTTGATGAAGCTGATAACATTGAGGTAATCAGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:2489501/68‑1 (MQ=255)
aGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:2205658/66‑1 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGGTTCGTTGATAGAAGAAAATCAGATGGa > 1:3142492/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGAtag > 1:2296400/1‑51 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGTAAATCAGATGGa > 1:2996701/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATgg > 1:1750673/1‑68 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATgg > 1:452125/1‑68 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:2187946/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:230726/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:3255566/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:2364501/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:2394744/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:3379040/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:2676576/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:2770988/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:2814691/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:302621/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:323228/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:102710/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:12256/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:1682604/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:795963/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:862200/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:577227/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:1841854/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:1944431/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:195043/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:199221/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:2032344/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGa > 1:206552/1‑69 (MQ=255)
tAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCTTAGTTGATAGAAGAAAATCAGATGGa > 1:482524/1‑69 (MQ=255)
cATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:117105/45‑1 (MQ=255)
ggTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGtt > 1:3285550/1‑69 (MQ=255)
ggTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGtt > 1:1173825/1‑69 (MQ=255)
ggTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGtt > 1:2589083/1‑69 (MQ=255)
ggTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGtt > 1:1565761/1‑69 (MQ=255)
aTCCGCAAATTGCTGGATACACTCAAAGCCTCGtt < 1:1969502/35‑1 (MQ=255)
aTTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGa < 1:3127987/69‑1 (MQ=255)
aTTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGa < 1:2838062/69‑1 (MQ=255)
aTTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGa < 1:476679/69‑1 (MQ=255)
aTTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGa < 1:836538/69‑1 (MQ=255)
aTTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGa < 1:2168116/69‑1 (MQ=255)
ggATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCtt < 1:3375240/68‑1 (MQ=255)
ggATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCtt < 1:577813/68‑1 (MQ=255)
ggATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCtt < 1:1780894/68‑1 (MQ=255)
ggATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCtt < 1:3074229/68‑1 (MQ=255)
ggATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCtt < 1:1911357/68‑1 (MQ=255)
ggATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCtt < 1:1146641/68‑1 (MQ=255)
tACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTttat < 1:1635508/68‑1 (MQ=255)
tACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTttat < 1:79652/68‑1 (MQ=255)
tACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTttat < 1:2889277/68‑1 (MQ=255)
tACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTttat < 1:366349/68‑1 (MQ=255)
tACACTCAAAGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTttat < 1:2324733/68‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:3331161/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:3290489/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:1119139/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:2836885/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:2697050/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:1538599/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:2634684/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:2621205/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:2617990/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:1671353/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:2201644/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:1736004/67‑1 (MQ=255)
aGCTTCGTTGATAGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTc < 1:1756516/67‑1 (MQ=255)
gCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAc < 1:1187624/69‑1 (MQ=255)
gCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAc < 1:3117468/69‑1 (MQ=255)
gCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAc < 1:1750337/69‑1 (MQ=255)
gCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAc < 1:542390/69‑1 (MQ=255)
gCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAc < 1:184906/69‑1 (MQ=255)
gCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAc < 1:2096251/69‑1 (MQ=255)
gCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAc < 1:247604/69‑1 (MQ=255)
gCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAc < 1:2668380/69‑1 (MQ=255)
gCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAc < 1:2976890/69‑1 (MQ=255)
|
GAAGACCTTGATGAAGCTGATAACATTGAGGTAATCCGCAAATTGCTGGATACACTCAAAGCCTCGTTGATGGAAGAAAATCAGATGGAGCTGGCGTTACGCACCAGCGAAGCTTTATTACAATTCAAC > minE/820038‑820166
|
| 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
