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 |
2,344,609 |
G→A |
65.4% |
A425A (GCG→GCA) |
glnG → |
fused DNA‑binding response regulator in two‑component regulatory system with GlnL, nitrogen regulator I (NRI) |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,344,609 | 0 | G | A | 65.4%
| 51.3
/ 44.7
| 78 | A425A (GCG→GCA) | glnG | fused DNA‑binding response regulator in two‑component regulatory system with GlnL, nitrogen regulator I (NRI) |
| Reads supporting (aligned to +/- strand): ref base G (21/6); new base A (23/28); total (44/34) |
| Fisher's exact test for biased strand distribution p-value = 7.98e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.47e-01 |
GCTTCTTGCGCAGTGGGCAGACAGAGCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTGACGACCGCGTTGCGACATACGCAGGGGCATAAACAGGA > minE/2344546‑2344674
|
gCTTCTTGCGCAGTGGGCAGACAGAGCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCa > 1:1945542/1‑66 (MQ=255)
cagaGCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACt > 1:2496760/1‑69 (MQ=255)
cagaGCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACt > 1:2611305/1‑69 (MQ=255)
cagaGCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACt > 1:3268410/1‑69 (MQ=255)
cagaGCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACt > 1:375088/1‑69 (MQ=255)
agagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:630583/1‑69 (MQ=255)
agagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:3013797/1‑69 (MQ=255)
agagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:1823943/1‑69 (MQ=255)
agagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:1664620/1‑69 (MQ=255)
agagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:1620628/1‑69 (MQ=255)
agagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:1620789/1‑69 (MQ=255)
gagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:1023943/1‑68 (MQ=255)
gagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:2613523/1‑68 (MQ=255)
gagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:3226044/1‑68 (MQ=255)
gagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:1660872/1‑68 (MQ=255)
gagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:536893/1‑68 (MQ=255)
gagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:1236909/1‑68 (MQ=255)
gagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:444537/1‑68 (MQ=255)
gagCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTg > 1:13786/1‑68 (MQ=255)
agCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTgac < 1:1866022/69‑1 (MQ=255)
agCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTgac < 1:3305352/69‑1 (MQ=255)
gcgcTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTgac < 1:463234/68‑1 (MQ=255)
ccGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTGACGACCGCGTTGc > 1:2200729/1‑69 (MQ=255)
catcaAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTGACGACCGCGTTGCGACAt > 1:1560341/1‑69 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCTACATACGCAg < 1:1630692/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:3317342/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:367430/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:367765/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:3140000/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:380155/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:2973585/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:2885643/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:2748172/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:925064/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:1008579/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:969726/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:2354376/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:1134435/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:115513/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:1346274/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:1421529/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:1459121/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:1668475/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:1858035/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:1869967/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:22032/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:2338347/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:231259/66‑1 (MQ=255)
aaccTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:2318412/66‑1 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:1787032/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:67402/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:721587/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:552629/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:1227469/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:73675/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:909930/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:2579592/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:2814253/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:2714367/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:173355/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:1800669/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:2718234/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:323963/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:3201138/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:3192603/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:2004081/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:2078155/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:3010608/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:2401722/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:943905/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGc > 1:110384/3‑57 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:1613791/66‑1 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:49390/66‑1 (MQ=255)
accTGCTTTCCGAAGCACAGCCAGAGCTGGAACGGACGTTACTGACCACCGCGCTGCGACATACGCAg < 1:2237479/66‑1 (MQ=255)
accTGCTTACCGAAGCACAGCCAGAGCTGGAACGGACGTTACTg > 1:485720/3‑44 (MQ=37)
aGCGCAGCCAGAGCTGGAGCGGACGTTACTGACGACCGCGTTGCGACATACGCAGGGGCATAAACAGGa < 1:836215/69‑1 (MQ=255)
aGCGCAGCCAGAGCTGGAGCGGACGTTACTGACGACCGCGTTGCGACATACGCAGGGGCATAAACAGGa < 1:276397/69‑1 (MQ=255)
aGCGCAGCCAGAGCTGGAGCGGACGTTACTGACGACCGCGTTGCGACATACGCAGGGGCATAAACAGGa < 1:2898563/69‑1 (MQ=255)
gcgcAGCCAGAGCTGGAGCGGACGTTACTGACGACCGCGTTGCGACATACGCAGGGGCATAAACAGGa < 1:2559925/68‑1 (MQ=255)
|
GCTTCTTGCGCAGTGGGCAGACAGAGCGCTGCGTTCCGGTCATCAAAATCTGCTTTCCGAAGCGCAGCCAGAGCTGGAGCGGACGTTACTGACGACCGCGTTGCGACATACGCAGGGGCATAAACAGGA > minE/2344546‑2344674
|
| 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
