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 |
2,674,370 |
C→T |
44.0% |
G56G (GGG→GGA) |
gntT ← |
gluconate transporter, high‑affinity GNT I system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,674,370 | 0 | C | T | 44.0%
| 21.6
/ 64.6
| 84 | G56G (GGG→GGA) | gntT | gluconate transporter, high‑affinity GNT I system |
| Reads supporting (aligned to +/- strand): ref base C (24/23); new base T (22/15); total (46/38) |
| Fisher's exact test for biased strand distribution p-value = 5.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.72e-01 |
CTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTG > minE/2674309‑2674423
|
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:2803679/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:1832398/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:1876017/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:1978746/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:223663/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:1624829/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:2623590/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:2770051/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:1458029/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:2929790/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:1213912/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:493713/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:701606/69‑1 (MQ=255)
cTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGa < 1:950722/69‑1 (MQ=255)
tGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGac < 1:1346223/69‑1 (MQ=255)
tGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGac > 1:3342972/1‑69 (MQ=255)
tGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGac > 1:2202843/1‑69 (MQ=255)
aTTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGCGCGTCCCGCCGACACCGGCt > 1:3196440/1‑69 (MQ=255)
aTTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCt > 1:2576992/1‑69 (MQ=255)
aTTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCt > 1:2962267/1‑69 (MQ=255)
aTTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCt > 1:2253567/1‑69 (MQ=255)
aTTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCt > 1:437964/1‑69 (MQ=255)
aTTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCt > 1:163563/1‑69 (MQ=255)
ttGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTg > 1:2912171/1‑69 (MQ=255)
ttGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTg > 1:3015969/1‑69 (MQ=255)
gcgcCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATa > 1:1093860/1‑69 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCTAGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:1147744/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACAcc > 1:2650978/1‑42 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:358392/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:2598504/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:1227775/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:3264878/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:1623524/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:3094012/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:2389481/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:2747477/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:2290279/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:3060352/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:210267/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:574394/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:693009/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:1434666/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGa < 1:180059/54‑1 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:2888471/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:2571055/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:2443684/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:2430490/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:354511/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:812594/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTTCCGCCGACACCGGCTTTCATGGAGCCAATAACTTTa > 1:867836/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:3379182/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:124260/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:1151340/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:127439/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:92394/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:1804203/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:2671055/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:1092209/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:1710067/1‑67 (MQ=255)
aCCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTa > 1:2819227/1‑67 (MQ=255)
aTCAGGGCAAGGCTACCGAGCGTCCCGCCGACAcc > 1:2764850/1‑35 (MQ=255)
aTCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGc > 1:1962029/1‑69 (MQ=255)
aTCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGc > 1:578186/1‑69 (MQ=255)
aaGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTg < 1:2032565/69‑1 (MQ=255)
aaGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTg < 1:1592458/69‑1 (MQ=255)
aaGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTg < 1:2629279/69‑1 (MQ=255)
aaGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTg < 1:2604409/69‑1 (MQ=255)
aaGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTg < 1:2568672/69‑1 (MQ=255)
aaGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTg < 1:2035265/69‑1 (MQ=255)
aaGGCTAACGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTg < 1:579120/69‑1 (MQ=255)
gCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTg < 1:1658770/66‑1 (MQ=255)
aGCGTTCCTCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:658053/1‑49 (MQ=39)
aGCGTTCCGCCGACACGGGCTTTGATGGAGCCAATAACTTTATCCAGc > 1:548954/1‑48 (MQ=39)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:1096987/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:724125/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:1681149/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:1788375/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:1795537/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:571732/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:2209724/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:378768/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:2303357/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:1439040/1‑49 (MQ=255)
aGCGTTCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCg > 1:2809063/1‑49 (MQ=255)
|
CTGCCAGCATTTTGCCCAGCATTGCGCCAAAACCCATGATCAGGGCAAGGCTACCGAGCGTCCCGCCGACACCGGCTTTGATGGAGCCAATAACTTTATCCAGCGGCATTCCTTG > minE/2674309‑2674423
|
| 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
