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 |
1,654,281 |
A→G |
45.5% |
S133S (TCA→TCG) |
purM → |
phosphoribosylaminoimidazole synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,654,281 | 0 | A | G | 45.5%
| 4.5
/ 43.9
| 55 | S133S (TCA→TCG) | purM | phosphoribosylaminoimidazole synthetase |
| Reads supporting (aligned to +/- strand): ref base A (11/19); new base G (13/12); total (24/31) |
| Fisher's exact test for biased strand distribution p-value = 2.86e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAGGATTAC > minE/1654213‑1654344
|
aCCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCa < 1:963121/69‑1 (MQ=255)
aCCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCa < 1:956039/69‑1 (MQ=255)
aCCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCa < 1:758955/69‑1 (MQ=255)
aCCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCa < 1:533837/69‑1 (MQ=255)
aCCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCa < 1:3065052/69‑1 (MQ=255)
aCCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCa < 1:2720461/69‑1 (MQ=255)
aCCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCa < 1:1009093/69‑1 (MQ=255)
aCCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCa < 1:1862861/69‑1 (MQ=255)
ccGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCa < 1:2551581/68‑1 (MQ=255)
aaCTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGtt < 1:2995661/69‑1 (MQ=255)
aaCTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGtt < 1:120791/69‑1 (MQ=255)
aaCTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGtt < 1:2719768/69‑1 (MQ=255)
aCCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGgtgggtgga < 1:1254876/69‑2 (MQ=255)
gCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGa < 1:1448157/68‑1 (MQ=255)
gCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGa < 1:116505/68‑1 (MQ=255)
gCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGa < 1:376433/68‑1 (MQ=255)
gCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGa < 1:475694/68‑1 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGGAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:2927943/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:409887/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:2632510/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:1246116/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:3324030/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:3392501/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:2332358/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:1301203/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:2232599/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:1647953/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:782039/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:2291997/1‑67 (MQ=255)
cAGCGGTGATCAGCGGCATCGCGGAAGGTTGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAAc > 1:1824735/1‑67 (MQ=255)
ggTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGa < 1:2420300/69‑1 (MQ=255)
ggTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGa < 1:3013107/69‑1 (MQ=255)
cAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGcc > 1:837375/1‑69 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGa < 1:828471/53‑1 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGa < 1:1708266/53‑1 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGa < 1:673840/53‑1 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGa < 1:2084155/53‑1 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGcc > 1:393137/1‑59 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTa > 1:3111596/1‑68 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTAt > 1:3107818/1‑69 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTAt > 1:107914/1‑69 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTAt > 1:121884/1‑69 (MQ=255)
gCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTAt > 1:2294011/1‑69 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACTGTGa < 1:958428/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:2523487/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:2497895/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:3409329/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:2444346/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:233567/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:1118381/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:1751732/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:1885840/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:826946/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:1949255/69‑1 (MQ=255)
ttGTCTGCAATCGGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGa < 1:1150875/69‑1 (MQ=255)
gTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAgg > 1:283121/1‑69 (MQ=255)
gTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAgg > 1:1266144/1‑69 (MQ=255)
gTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAgg > 1:452220/1‑69 (MQ=255)
gTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAgg > 1:2780492/1‑69 (MQ=255)
aTCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAGGATTAc < 1:1898464/67‑1 (MQ=255)
aTCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAGGATTAc < 1:61218/67‑1 (MQ=255)
aTCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAGGATTAc < 1:1960256/67‑1 (MQ=255)
aTCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAGGATTAc < 1:2204569/67‑1 (MQ=255)
aTCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAGGATTAc < 1:2883684/67‑1 (MQ=255)
|
ACCGGAAAACTGGATGTTGATACCGCTTCAGCGGTGATCAGCGGCATTGCGGAAGGTTGTCTGCAATCAGGCTGTTCACTGGTGGGTGGCGAAACGGCAGAAATGCCGGGGATGTATCACGGTGAGGATTAC > minE/1654213‑1654344
|
| 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
