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 |
1,220,477 |
G→A |
70.6% |
V102I (GTT→ATT) |
yebS → |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,220,477 | 0 | G | A | 70.6%
| 55.3
/ 26.0
| 61 | V102I (GTT→ATT) | yebS | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (11/7); new base A (16/27); total (27/34) |
| Fisher's exact test for biased strand distribution p-value = 9.97e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TATGCCGTTTGCCTGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACGGGGTCGATGGTCT > minE/1220410‑1220537
|
tATGCCGTTTGCCTGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGt < 1:801167/69‑1 (MQ=255)
tGCCTGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAgg < 1:2022300/69‑1 (MQ=255)
tGCCTGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAgg < 1:1491987/69‑1 (MQ=255)
tGCCTGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAgg < 1:1941552/69‑1 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCAt > 1:792140/1‑68 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:2817242/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:313846/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:1106701/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:3387810/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:2012313/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:257309/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:1947029/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:1884062/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:665112/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:2995030/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:2991287/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:1345037/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:1252712/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:1217557/1‑69 (MQ=255)
tGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACATTATGCAAGGCATc > 1:963208/1‑69 (MQ=255)
ggggCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAGGCATc > 1:504505/1‑68 (MQ=255)
ggggCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAGGCATCt > 1:1927114/1‑69 (MQ=255)
ggggCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAGGCATCt > 1:1139868/1‑69 (MQ=255)
ggggCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAGGCATCt > 1:2277823/1‑69 (MQ=255)
aaCCGCTGTTGCATATCTGGCTTTTAGGCATTCGTATTGACGCCAACGTTATGCAAgg < 1:2319071/58‑1 (MQ=255)
tatCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAgg > 1:2250560/1‑68 (MQ=255)
ggCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:273418/69‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGTCCAATCAGGGCGATGCGATAACg < 1:1133654/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCTATAACg < 1:440185/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:3187654/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:3035842/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:3232877/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:705675/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:87958/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:2951186/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:2943803/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:2871833/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:964013/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:251673/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:2636687/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:1604655/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:1606499/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:1616875/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:1797509/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:2734089/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:1999826/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:2034918/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:2289293/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:1191554/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:2423105/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:1135916/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:2605203/68‑1 (MQ=255)
gCATTCGTATTGACGCCAACATTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACg < 1:262030/68‑1 (MQ=255)
cGTATTGACGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACGGGGTCg > 1:898195/1‑69 (MQ=255)
cGTATTGACGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACGGGGTCg > 1:1598953/1‑69 (MQ=255)
cGTATTGACGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACGGGGTCg > 1:1964197/1‑69 (MQ=255)
cGTATTGACGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACGGGGTCg > 1:736726/1‑69 (MQ=255)
cGTATTGACGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACGGGGTCg > 1:2076277/1‑69 (MQ=255)
cGTATTGACGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACGGGGTCg > 1:2420307/1‑69 (MQ=255)
cGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACGGGGTCGATGGTCt < 1:2588462/68‑1 (MQ=255)
cGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGAGGCGATAACGGGGTAGATGTTCt < 1:96828/68‑1 (MQ=255)
|
TATGCCGTTTGCCTGGGGCGAACCGCTGTTGCATATCTGGCTGTTAGGCATTCGTATTGACGCCAACGTTATGCAAGGCATCTGGCAAATGACCAAACAGGGCGATGCGATAACGGGGTCGATGGTCT > minE/1220410‑1220537
|
| 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
