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 |
1,665,980 |
T→C |
42.4% |
Q259Q (CAA→CAG) |
guaB ← |
IMP dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,665,980 | 0 | T | C | 42.4%
| 13.2
/ 43.0
| 59 | Q259Q (CAA→CAG) | guaB | IMP dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base T (7/27); new base C (8/17); total (15/44) |
| Fisher's exact test for biased strand distribution p-value = 3.74e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.19e-01 |
GCTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAC > minE/1665915‑1666045
|
gCTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGc < 1:161073/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:1222750/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:2497408/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:628635/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:3305362/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:2588796/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:1404789/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:2343865/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:1970578/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:2163986/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:1762655/69‑1 (MQ=255)
cTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:3373365/69‑1 (MQ=255)
cTGTTGCCACGGTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCa < 1:1888529/69‑1 (MQ=255)
tGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAg < 1:19303/69‑1 (MQ=255)
tGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAg < 1:3310222/69‑1 (MQ=255)
tGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAg < 1:1354960/69‑1 (MQ=255)
tGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAg < 1:2011805/69‑1 (MQ=255)
gTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAg < 1:355172/68‑1 (MQ=255)
gCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTa < 1:2929705/67‑1 (MQ=255)
gCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTa < 1:2545189/67‑1 (MQ=255)
gCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTa < 1:2510776/67‑1 (MQ=255)
gCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTa < 1:1732689/67‑1 (MQ=255)
gCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTa < 1:620743/67‑1 (MQ=255)
gCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTa < 1:840657/67‑1 (MQ=255)
gaTTTGCAGGTCAGGATATTTAGCGCGAGTTTCACGGATACGCTGCAGAACACCTTCAGAGTGAcc > 1:3211438/2‑66 (MQ=255)
gaTTTGCAGGTCAGGATATTTAGCGCGAGTTTCACGGATACGCTGCAGAACACCTTCAGAGTGAcc > 1:2878472/2‑66 (MQ=255)
gaTTTGCAGGTCAGGATATTTAGCGCGAGTTTCACGGATACGCTGCAGAACACCTTCAGAGTGAcc > 1:485990/2‑66 (MQ=255)
gaTTTGCAGGTCAGGATATTTAGCGCGAGTTTCACGGATACGCTGCAGAACACCTTCAGAGTGAcc > 1:858483/2‑66 (MQ=255)
gaTTTGCAGGTCAGGATATTTAGCGCGAGTTTCACGGATACGCTGCAGAACACCTTCAGAGTGAcc > 1:997326/2‑66 (MQ=255)
gaTTTGCAGGTCAGGATATTTAGCGCGAGTTTCACGGATACGCTGCAGAACACCTTCAGAGTGAcc > 1:1356041/2‑66 (MQ=255)
gaTTTGCAGGTCAGGATATTTAGCGCGAGTTTCACGGATACGCTGCAGAACACCTTCAGAGTGAcc > 1:1704295/2‑66 (MQ=255)
gaTTTGCAGGTCAGGATATTTAGCGCGAGTTTCACGGATACGCTGCAGAACACCTTCAGAGTGAcc > 1:1834286/2‑66 (MQ=255)
ttGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTggg < 1:2114374/68‑1 (MQ=255)
ccGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCg > 1:2786754/1‑68 (MQ=255)
tttAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATcaggag > 1:2963779/1‑69 (MQ=255)
tttAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATcagcag > 1:1066890/1‑69 (MQ=255)
tttAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATcagcag > 1:2591836/1‑69 (MQ=255)
tttAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATcagcag > 1:612765/1‑69 (MQ=255)
tttAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATcagcag > 1:378671/1‑69 (MQ=255)
tttAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATcagcag > 1:367638/1‑69 (MQ=255)
aCGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATCAGCAGAACGTc < 1:3001855/69‑1 (MQ=255)
cGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATCAGCAGAACGTc < 1:1158920/68‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTTCGGCAAc < 1:2369249/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:3092124/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:1897878/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:3071324/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:1816757/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:1813324/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:3068670/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:3014893/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:3001844/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:1648556/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:2058640/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:2635992/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:1350574/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:1248622/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:2606107/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:941699/69‑1 (MQ=255)
aCGCTGCAGAACACCTTCAGAGTGACCGTGAGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAc < 1:2529081/69‑1 (MQ=255)
|
GCTGTTGCCACGTTGCCGCCGATAATTTGCAGATCCGGATATTTAGCACGGGTTTCACGGATACGTTGCAGTACACCTTCTGAGTGACCGTGGGAGGAGTCGATCAGCAGAACGTCAACGCCTGCGGCAAC > minE/1665915‑1666045
|
| 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
