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 |
2,906,647 |
T→C |
23.0% |
A306A (GCA→GCG) |
treB ← |
fused trehalose(maltose)‑specific enzyme IIBC component of PTS |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,906,647 | 0 | T | C | 23.0%
| 97.7
/ 24.3
| 78 | A306A (GCA→GCG) | treB | fused trehalose(maltose)‑specific enzyme IIBC component of PTS |
| Reads supporting (aligned to +/- strand): ref base T (36/24); new base C (4/14); total (40/38) |
| Fisher's exact test for biased strand distribution p-value = 6.78e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
TCAATAGCAAGCGTGGTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCC > minE/2906579‑2906709
|
tCAATAGCAAGCGTGGTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAAtgct > 1:3177116/1‑69 (MQ=255)
tCAATAGCAAGCGTGGTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAAtgct > 1:1789382/1‑69 (MQ=255)
tCAATAGCAAGCGTGGTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAAtgct > 1:890681/1‑69 (MQ=255)
gCGTGGTCTGGTGTACACCGGTGATCACCAGCGTGGCGTACATGAAGCCAAACAATGCTGCGCCAATCg < 1:953284/69‑1 (MQ=255)
gCGTGGTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCg < 1:966654/69‑1 (MQ=255)
gCGTGGTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCg < 1:2634488/69‑1 (MQ=255)
cGTGGTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCgg > 1:1711542/1‑69 (MQ=255)
cGTGGTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCgg > 1:603500/1‑69 (MQ=255)
cGTGGTCTGGTGTACACCGGTGATAACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCgg > 1:417143/1‑69 (MQ=255)
gTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAg > 1:3348724/1‑67 (MQ=255)
gTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAg > 1:506675/1‑67 (MQ=255)
gTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAg > 1:432859/1‑67 (MQ=255)
gTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAg > 1:1937784/1‑67 (MQ=255)
gTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAg > 1:1008097/1‑67 (MQ=255)
gTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAg > 1:2805770/1‑67 (MQ=255)
gTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAg > 1:3113945/1‑67 (MQ=255)
gTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAg > 1:308921/1‑67 (MQ=255)
gtACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCt < 1:3376163/67‑1 (MQ=255)
ggTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGtc > 1:264242/1‑67 (MQ=255)
ggTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGtc > 1:994829/1‑67 (MQ=255)
ggTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGtc > 1:590032/1‑67 (MQ=255)
ggTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGtc > 1:599409/1‑67 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGt < 1:1490016/68‑1 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGt < 1:1762737/68‑1 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGt < 1:2026467/68‑1 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGt < 1:2072943/68‑1 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGt < 1:3407885/68‑1 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGt < 1:249509/68‑1 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTg > 1:3198778/1‑69 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTg > 1:1398832/1‑69 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTg > 1:2600802/1‑69 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTg > 1:3343049/1‑69 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTg > 1:3215767/1‑69 (MQ=255)
cACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTg > 1:1506518/1‑69 (MQ=255)
aCCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGt < 1:1440602/67‑1 (MQ=255)
aCCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGa < 1:1645359/69‑1 (MQ=255)
aCCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGa < 1:3079214/69‑1 (MQ=255)
aCCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGa < 1:63899/69‑1 (MQ=255)
aCCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGa < 1:2189647/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:2915679/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:893299/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:959150/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:564453/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:1054637/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:530609/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:3066002/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:3039010/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:2907837/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:1209650/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:1214494/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:256711/69‑1 (MQ=255)
gCGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCAGTCATCAGGTGACGTACCGCa < 1:808697/69‑1 (MQ=255)
cGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:3342616/68‑1 (MQ=255)
cGTACAGGAAGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:3050690/68‑1 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCaaa > 1:734632/1‑36 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGtcatca > 1:1466364/1‑50 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCaa > 1:2320379/1‑65 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:84123/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:1475674/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:1473963/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:758974/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:165020/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:1452554/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:1219825/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:1153382/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:3056889/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc < 1:1720239/69‑1 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:2391740/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:2394054/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:2474775/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:3294594/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:3282145/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:2841645/1‑69 (MQ=255)
cAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGc > 1:3073238/1‑69 (MQ=255)
aGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGc < 1:1459041/69‑1 (MQ=255)
aGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGc < 1:2718517/69‑1 (MQ=255)
aGCCAAACAATGCCGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCa < 1:2856040/59‑1 (MQ=255)
gCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGcc < 1:817457/69‑1 (MQ=255)
cAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGcc < 1:1542620/69‑1 (MQ=255)
cAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGcc < 1:1464047/69‑1 (MQ=255)
cAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGcc < 1:1313146/69‑1 (MQ=255)
|
TCAATAGCAAGCGTGGTCTGGTGTACACCGGTGATCACCAGCGGGGCGTACAGGAAGCCAAACAATGCTGCGCCAATCGGAGCAAAGCTGCCGGTCATCAGGTGACGTACCGCAAAGGCAACGCCATCGCC > minE/2906579‑2906709
|
| 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
