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 |
832,634 |
G→A |
22.2% |
A364A (GCG→GCA) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 832,634 | 0 | G | A | 22.2%
| 92.2
/ 17.6
| 67 | A364A (GCG→GCA) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (3/49); new base A (6/9); total (9/58) |
| Fisher's exact test for biased strand distribution p-value = 2.79e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.06e-01 |
GATGCTGGAAGAACGCGACGGTTACTACGCTGCAGGTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATACCAATGGCGA > minE/832565‑832690
|
gATGCTGGAAGAACGCGACGGTTACTACGCTGCAGGTCGTATGCTGCGCGCTGCT‑ATCTGGTTGATgcg > 1:598906/1‑69 (MQ=255)
actacGCTGCAGGTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCgg < 1:1740973/69‑1 (MQ=255)
actacGCTGCAGGTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCgg < 1:1803660/69‑1 (MQ=255)
actacGCTGCAGGTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCgg < 1:1848740/69‑1 (MQ=255)
actacGCAGCAGGTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCgg < 1:773562/69‑1 (MQ=255)
tacGCTGCAGGTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCgg < 1:767428/67‑1 (MQ=255)
gCAGGTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCgg < 1:1855441/61‑1 (MQ=255)
gCAGGTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGaaa < 1:874646/69‑1 (MQ=255)
ggTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACt < 1:1298182/69‑1 (MQ=255)
ggTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACt < 1:2051810/69‑1 (MQ=255)
ggTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACt < 1:1260111/69‑1 (MQ=255)
ggTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACt < 1:2082442/69‑1 (MQ=255)
ggTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACt < 1:3326041/69‑1 (MQ=255)
ggTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACt < 1:1641068/69‑1 (MQ=255)
ggTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACt < 1:2658406/69‑1 (MQ=255)
ggTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACt < 1:2108312/69‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCTAGGAAAACAATCCGGAAt < 1:2931530/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt > 1:2682063/1‑54 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:1054/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:2718345/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:672036/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:2786182/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:3269638/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:501272/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:360520/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:475666/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt > 1:2202315/1‑54 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:1749417/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:934493/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:1626137/54‑1 (MQ=255)
tgctgcGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt < 1:1258142/54‑1 (MQ=255)
tgctgcGCGCTGATGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAAt > 1:61823/1‑54 (MQ=255)
gcgcgcTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:115349/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:2594031/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:142769/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:1356712/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCtttga < 1:1326384/69‑3 (MQ=255)
gcgcgcTGCTGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:779403/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:3331655/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:1220021/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:3166844/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:614296/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:1372138/69‑1 (MQ=255)
gcgcgcTGCTGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:914634/69‑1 (MQ=255)
cgcgcTGCTGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTaa < 1:1591980/68‑1 (MQ=255)
gctgctGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATAcc > 1:604717/1‑69 (MQ=255)
gctgctGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATAcc > 1:2913763/1‑69 (MQ=255)
gctgctGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATAcc > 1:480987/1‑69 (MQ=255)
gctgctGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATAcc > 1:21499/1‑69 (MQ=255)
gctgctGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATAcc > 1:472635/1‑69 (MQ=255)
gctgctGATCTGGTGGATGCACTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTATAATAcc > 1:1113425/1‑69 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:3412648/60‑1 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:1172207/60‑1 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:2453296/60‑1 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:2532449/60‑1 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:2572194/60‑1 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:2718572/60‑1 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:3001812/60‑1 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:3027089/60‑1 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:3228026/60‑1 (MQ=255)
gctgATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCttt < 1:434449/60‑1 (MQ=255)
cTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATACCAATGGCGa < 1:64408/68‑1 (MQ=255)
cTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATACCAATGGCGa < 1:646898/68‑1 (MQ=255)
cTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATACCAATGGCGa < 1:3217169/68‑1 (MQ=255)
cTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATACCAATGGCGa < 1:3387324/68‑1 (MQ=255)
cTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATACCAATGGCGa < 1:496091/68‑1 (MQ=255)
cTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATACCAATGGCGa < 1:2227590/68‑1 (MQ=255)
cTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATACCAATGGCGa < 1:1735373/68‑1 (MQ=255)
|
GATGCTGGAAGAACGCGACGGTTACTACGCTGCAGGTCGTATGCTGCGCGCTGCTGATCTGGTTGATGCGCTGGGCCAGGAAAACAATCCGGAATGGAAAACTGTCGCCTTTAATACCAATGGCGA > minE/832565‑832690
|
| 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
