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 |
791,603 |
G→A |
59.5% |
G171S (GGC→AGC) |
dadX → |
alanine racemase 2, PLP‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 791,603 | 0 | G | A | 59.5%
| 25.2
/ 48.3
| 69 | G171S (GGC→AGC) | dadX | alanine racemase 2, PLP‑binding |
| Reads supporting (aligned to +/- strand): ref base G (10/18); new base A (14/27); total (24/45) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.74e-01 |
GCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGCGCGTATTGAGCAGGCGGCGGAGGGGCTGGAGTGTCGGCGTTCGTTGTCCAATTC > minE/791537‑791667
|
gCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgc > 1:1741835/1‑69 (MQ=255)
gCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgc > 1:1049851/1‑69 (MQ=255)
gCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgc > 1:304899/1‑69 (MQ=255)
gCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgc > 1:2201137/1‑69 (MQ=255)
gCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgc > 1:3393809/1‑69 (MQ=255)
gCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgc > 1:2828597/1‑69 (MQ=255)
gCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgc > 1:1687584/1‑69 (MQ=255)
gCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgc > 1:1379540/1‑69 (MQ=255)
gAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCTAAGCGGAACATCCTAATGGAATTTCCGgcgc < 1:2623161/69‑1 (MQ=255)
gAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgcgc < 1:1932496/69‑1 (MQ=255)
gAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgcgc < 1:463621/69‑1 (MQ=255)
gAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgcgc < 1:3088939/69‑1 (MQ=255)
gAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgcgc < 1:2853622/69‑1 (MQ=255)
gAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgcgc < 1:996127/69‑1 (MQ=255)
gAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGgcgc < 1:3047584/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGcgcg < 1:1654602/68‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGCGCGt < 1:3370823/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGCGCGt < 1:2984395/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGCGCGt < 1:1930245/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGCGCGt < 1:1288629/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGCGCGt < 1:867354/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGCGCGt < 1:785741/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:1917042/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:1038038/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:987056/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:1620215/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:2243017/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:1734894/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:47255/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:486227/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:2044247/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:1986982/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:530790/69‑1 (MQ=255)
gAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGt < 1:702862/69‑1 (MQ=255)
tCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGCGCGTATTGAGCAggcgg > 1:2802052/1‑67 (MQ=255)
gAAGCGTAACATCCTGATGGATTTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:1209027/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:757673/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:360336/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:551920/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:994911/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:998266/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:1001629/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:555895/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:1113885/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:1366444/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:2499255/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:1727833/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:2120013/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:193352/68‑1 (MQ=255)
gAAGCGGAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGAAGGGCTGGa < 1:3007311/68‑1 (MQ=255)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:1984765/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:116046/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:1299520/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:1359274/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:1723489/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:1831860/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:638889/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:514389/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:2194098/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:2479974/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:2606594/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:3354382/1‑54 (MQ=39)
ggAACATCCTGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:3109484/1‑54 (MQ=39)
ggAACATCCAGATGGAATTTCCAGCGCGATGGCGCGTATTGAGCAGGCGGCGGaag > 1:1916194/1‑54 (MQ=38)
tCCTGATGGAATTTCCGGCGCGATGGCGCGTATTGAGCAGGCGGCGGAGGGGCTGGAGTGTCGGcgttc > 1:2321493/1‑69 (MQ=255)
ttCCGGCGCGATGGCGCGTATTGAGCAGGCGGCGGAGGGGCTGGAGTGTCGGCGTTCGTTGTCCAATTc < 1:3362768/69‑1 (MQ=255)
ttCCGGCGCGATGGCGCGTATTGAGCAGGCGGCGGAGGGGCTGGAGTGTCGGCGTTCGTTGTCCAATTc < 1:878266/69‑1 (MQ=255)
ttCCGGCGCGATGGCGCGTATTGAGCAGGCGGCGGAGGGGCTGGAGTGTCGGCGTTCGTTGTCCAATTc < 1:3125717/69‑1 (MQ=255)
ttCCGGCGCGATGGCGCGTATTGAGCAGGCGGCGGAGGGGCTGGAGTGTCGGCGTTCGTTGTCCAATTc < 1:2634175/69‑1 (MQ=255)
|
GCGAATGTTGGCGAAATGACCCTGATGTCGCATTTTGCCGAAGCGGAACATCCTGATGGAATTTCCGGCGCGATGGCGCGTATTGAGCAGGCGGCGGAGGGGCTGGAGTGTCGGCGTTCGTTGTCCAATTC > minE/791537‑791667
|
| 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
