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 |
2,205,665 |
G→A |
60.3% |
L288L (CTG→CTA) |
aaeR → |
predicted DNA‑binding transcriptional regulator, efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,205,665 | 0 | G | A | 60.3%
| 27.9
/ 45.5
| 68 | L288L (CTG→CTA) | aaeR | predicted DNA‑binding transcriptional regulator, efflux system |
| Reads supporting (aligned to +/- strand): ref base G (23/4); new base A (24/17); total (47/21) |
| Fisher's exact test for biased strand distribution p-value = 3.09e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01 |
TTATGCGTTATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAGGTCGTGATCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAAG > minE/2205602‑2205723
|
ttATGCGTTATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAGGTCGTGATCAACTCGCTGACgg > 1:2542297/1‑68 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAGGTCGTGATCAACTCGCTGACGGATTAtttt > 1:2113741/1‑69 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:3049883/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:2161450/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:2391545/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:1115197/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:1796060/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:1701122/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:2682360/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:1623813/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:3056231/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:3288187/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:459924/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:133215/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:557795/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:769800/68‑1 (MQ=255)
ttATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:780912/68‑1 (MQ=255)
ataCCGAAAAAGATAAGCTGCCGCTGAAGGTACAGGTCGTGATCAACTCGCTGACGGATTATTttgttg > 1:2940687/1‑69 (MQ=255)
ataCCGAAAAAGATAAGCTGCCGCTGAAGGTACAGGTCGTGATCAACTCGCTGACGGATTATTttgttg > 1:652242/1‑69 (MQ=255)
ataCCGAAAAAGATAAGCTGCCGCTGAAGGTACAGGTCGTGATCAACTCGCTGACGGATTATTttgttg > 1:995340/1‑69 (MQ=255)
aGCTGCCGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:1380274/49‑1 (MQ=39)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTaaa > 1:2534115/1‑60 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTaaa > 1:2062838/1‑60 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTaa > 1:3036945/1‑59 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:2111201/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:1225389/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:769777/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:3401716/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:3344055/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:3150401/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:311997/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:1591827/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:3009734/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:1628710/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:2842478/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:2838633/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:1637164/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:2659662/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:1745611/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:183268/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:2093583/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:2133481/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:1962282/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:2452045/1‑68 (MQ=255)
ccGCTGAAGGTACAAGTCGTGATCAACTCGCTAACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCa > 1:2394464/1‑68 (MQ=255)
gAAGGTACAAGTCGTGATCAACTCGCTAACGGATTAttt < 1:2487015/39‑1 (MQ=37)
aCAGGTCGTGATCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGgaga > 1:2386937/1‑62 (MQ=255)
aCAGGTCGTGATCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACgg > 1:345469/1‑69 (MQ=255)
ggTCGTGATCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATg > 1:2747530/1‑61 (MQ=255)
ggTCGTGATCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGgcg > 1:2844877/1‑69 (MQ=255)
gTCGTGATCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGga > 1:3095117/1‑56 (MQ=255)
gTCGTGATCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGgcgc > 1:1314872/1‑69 (MQ=255)
gTCGTGATCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGgcgc > 1:3303934/1‑69 (MQ=255)
aTCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGa > 1:3267014/1‑67 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGga > 1:1151198/1‑48 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGCTGCACGGGCGCGGGAAag > 1:595515/1‑68 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGAt > 1:2525340/1‑51 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATg > 1:1388167/1‑52 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag > 1:3300612/1‑68 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag > 1:2228791/1‑68 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag > 1:2000086/1‑68 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag > 1:340852/1‑68 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag < 1:1590907/68‑1 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag > 1:1372610/1‑68 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag < 1:2963446/68‑1 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag < 1:1300662/68‑1 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag > 1:1293206/1‑68 (MQ=255)
cAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAag < 1:2869948/68‑1 (MQ=255)
|
TTATGCGTTATATACCGAAAAAGATAAGCTGCCGCTGAAGGTACAGGTCGTGATCAACTCGCTGACGGATTATTTTGTTGAGGTCGGTAAATTGTTTCAGGAGATGCACGGGCGCGGGAAAG > minE/2205602‑2205723
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
