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 |
1,126,684 |
T→C |
61.7% |
intergenic (‑51/+233) |
pheS ← / ← pheM |
phenylalanine tRNA synthetase, alpha subunit/phenylalanyl‑tRNA synthetase operon leader peptide |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,126,684 | 0 | T | C | 61.7%
| 32.5
/ 40.9
| 66 | intergenic (‑51/+233) | pheS/pheM | phenylalanine tRNA synthetase, alpha subunit/phenylalanyl‑tRNA synthetase operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base T (13/12); new base C (20/20); total (34/32) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.35e-01 |
CTGCGAGATGTGACATGGTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTAAA > minE/1126618‑1126751
|
cTGCGAGATGTGACATGGTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTAt > 1:94148/1‑69 (MQ=255)
cTGCGAGATGTGACATGGTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTAt > 1:1876717/1‑69 (MQ=255)
cTGCGAGATGTGACATGGTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTAt > 1:634862/1‑69 (MQ=255)
cTGCGAGATGTGACATGGTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTAt > 1:730374/1‑69 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCa > 1:569376/1‑64 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCa > 1:729704/1‑67 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:2604364/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:2649392/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:3301393/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:2389929/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:33084/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:3338686/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:2446376/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:2068314/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:1949877/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:1917444/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:246411/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:1653566/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:659385/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:1436878/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:3401095/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:778476/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:901405/1‑68 (MQ=255)
gtgACATGTTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCAATCCCATCa > 1:1680570/1‑67 (MQ=255)
gtgACATGTTTTTACTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCCATCCCATCAg > 1:3169225/1‑68 (MQ=255)
ttCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACtt < 1:56929/69‑1 (MQ=255)
ttCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACtt < 1:3297621/69‑1 (MQ=255)
gtgtCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTg > 1:1841144/1‑69 (MQ=255)
gtgtCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTg > 1:1749946/1‑69 (MQ=255)
gtgtCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTg > 1:2527057/1‑69 (MQ=255)
gtgtCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTg > 1:1273722/1‑69 (MQ=255)
aGTGGTGACACTGGTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACtt < 1:3394714/55‑1 (MQ=255)
ggTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCa > 1:1349301/1‑47 (MQ=255)
ggTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTc > 1:828802/1‑68 (MQ=255)
ggTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTc > 1:2522544/1‑68 (MQ=255)
ggTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTc > 1:2230837/1‑68 (MQ=255)
tCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGaa < 1:1590797/68‑1 (MQ=255)
tCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGaa < 1:1159677/68‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:3127276/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:1657384/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:486680/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:1590505/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:365739/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:1785311/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:2049410/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:3369662/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:1465690/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:3309025/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:2206569/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:3067842/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:1317729/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:1283126/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:2981705/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:2887428/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:2608152/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:2556928/54‑1 (MQ=255)
tGGACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:1215570/54‑1 (MQ=255)
ggACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATtctc > 1:891414/1‑69 (MQ=255)
ggACTTAGAGCCCATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGc < 1:214126/53‑1 (MQ=255)
gCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTa < 1:3082689/69‑1 (MQ=255)
gCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTa < 1:1362020/69‑1 (MQ=255)
gCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTa < 1:2557357/69‑1 (MQ=255)
gCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTa < 1:2455183/69‑1 (MQ=255)
ccTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTa < 1:2337937/68‑1 (MQ=255)
cTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTaaa < 1:2515198/69‑1 (MQ=255)
cTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTaaa < 1:23273/69‑1 (MQ=255)
tATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGa < 1:478920/50‑1 (MQ=255)
tATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGa < 1:2121010/50‑1 (MQ=255)
tATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGa < 1:1375799/50‑1 (MQ=255)
tATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGa < 1:3062236/50‑1 (MQ=255)
tATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGa < 1:3034888/50‑1 (MQ=255)
tATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGa < 1:896067/50‑1 (MQ=255)
tATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGa < 1:2452599/50‑1 (MQ=255)
tATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGa < 1:1214939/50‑1 (MQ=255)
tATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTaaa < 1:2204293/68‑1 (MQ=255)
|
CTGCGAGATGTGACATGGTTTTCCTCATTGTGTCAGTGGTGACACTGGTTCGTTGGACTTAGAGCCTATCCCATCAGGCTATTTTACTTGCCATTTTGGTCCCGGGCTGTGCTCGAAATTCTCACGTACTTAAA > minE/1126618‑1126751
|
| 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
