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 |
2,721,260 |
C→T |
51.5% |
E107E (GAG→GAA) |
yhfK ← |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,721,260 | 0 | C | T | 51.5%
| ‑4.4
/ 59.0
| 66 | E107E (GAG→GAA) | yhfK | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (19/13); new base T (9/25); total (28/38) |
| Fisher's exact test for biased strand distribution p-value = 1.21e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.98e-01 |
GAGGGTAAAAATGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCTTTTGCCAG > minE/2721200‑2721328
|
gAGGGTAAAAATGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGt < 1:757908/69‑1 (MQ=255)
ggTAAAAATGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGa < 1:3195695/68‑1 (MQ=255)
ggTAAAAATGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGa < 1:1777712/68‑1 (MQ=255)
ggTAAAAATGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGa < 1:2807031/68‑1 (MQ=255)
ggTAAAAATGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGa < 1:370637/68‑1 (MQ=255)
ggTAAAAATGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGa < 1:2156568/68‑1 (MQ=255)
ggTAAAAATGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGa < 1:3052090/68‑1 (MQ=255)
aaaaTGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCTGTGACGCCa < 1:1091488/69‑1 (MQ=255)
aaaaTGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCa < 1:2498572/69‑1 (MQ=255)
aaaaTGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCa < 1:2589290/69‑1 (MQ=255)
aaaaTGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCa < 1:2636010/69‑1 (MQ=255)
gATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCg < 1:406894/69‑1 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATc > 1:3415539/1‑58 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGc > 1:530197/1‑66 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaa < 1:3047387/69‑1 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:420581/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:24396/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:2594665/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:2714398/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:2849404/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:928835/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:1301223/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:1873526/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:1489261/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:229319/1‑67 (MQ=255)
aGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCa > 1:3145444/1‑67 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCTTTAATCCGGTCAGCaaaaa < 1:1485850/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGTTCAGCaaaaa < 1:505749/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:355829/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2522331/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2510253/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2203342/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:752723/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:950795/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:1275453/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:1278758/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:1384001/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:924278/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:1721888/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:1724759/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:1865487/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2403511/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:746332/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2135764/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2150465/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:594070/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2213610/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2263909/69‑1 (MQ=255)
cAATTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2352229/69‑1 (MQ=255)
aaTTTTGCGTGCAATGGCCCCAGTTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCaaaaa < 1:2458052/68‑1 (MQ=255)
aaTTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCg < 1:1312164/57‑1 (MQ=255)
aaTTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAg > 1:2877479/1‑69 (MQ=255)
aaTTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAg > 1:2545001/1‑69 (MQ=255)
aaTTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAg > 1:2311847/1‑69 (MQ=255)
aaTTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAg > 1:2194076/1‑69 (MQ=255)
aaTTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAg > 1:2155670/1‑69 (MQ=255)
aaTTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAg > 1:187678/1‑69 (MQ=255)
gCCCCAGCTCAGCAGTGACGCCAAGTGCCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCtt > 1:929698/1‑69 (MQ=255)
gCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCtt > 1:2159442/1‑69 (MQ=255)
gCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCtt > 1:1083356/1‑69 (MQ=255)
gCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCtt > 1:1543676/1‑69 (MQ=255)
gCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCtt > 1:179223/1‑69 (MQ=255)
gCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCtt > 1:315212/1‑69 (MQ=255)
gCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCtt > 1:1019926/1‑69 (MQ=255)
gCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCtt > 1:2572990/1‑69 (MQ=255)
gCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCtt > 1:325127/1‑69 (MQ=255)
cTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCTTTTGCCag < 1:208910/69‑1 (MQ=255)
|
GAGGGTAAAAATGGCGGCGAGCAGCGATGCAGGAAGCAATTTTGCGTGCAATGGCCCCAGCTCAGCAGTGACGCCAAGTACCAGCGTTAATCCGGTCAGCAAAAAGGGCAGGGGAACATCTTTTGCCAG > minE/2721200‑2721328
|
| 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
