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 |
2,302,622 |
T→A |
43.1% |
S204S (TCA→TCT) |
metB ← |
cystathionine gamma‑synthase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,302,622 | 0 | T | A | 43.1%
| 23.8
/ 74.9
| 72 | S204S (TCA→TCT) | metB | cystathionine gamma‑synthase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base T (24/17); new base A (15/16); total (39/33) |
| Fisher's exact test for biased strand distribution p-value = 4.76e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.57e-01 |
TGCCCACCAGGCCAGTTCAGTGACAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGA > minE/2302556‑2302685
|
tGCCCACCAGGCCAGTTCAGTGACAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTg < 1:1551276/68‑1 (MQ=255)
tGCCCACCAGGCCAGTTCAGTGACAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTg < 1:1068124/68‑1 (MQ=255)
tGCCCACCAGGCCAGTTCAGTGACAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTg < 1:672303/68‑1 (MQ=255)
tGCCCACCAGGCCAGTTCAGTGACAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTg < 1:2003141/68‑1 (MQ=255)
aGTTCAGTGACAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGa < 1:2128774/69‑1 (MQ=255)
aGTTCAGTGACAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGa < 1:1896637/69‑1 (MQ=255)
gACAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCg > 1:3386673/1‑68 (MQ=255)
aCAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTg > 1:2214748/1‑69 (MQ=255)
aCAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTg > 1:2505632/1‑69 (MQ=255)
aCAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTg > 1:570209/1‑69 (MQ=255)
aCAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTg > 1:1294200/1‑69 (MQ=255)
aCAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTg > 1:2361909/1‑69 (MQ=255)
aCAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTg > 1:809708/1‑69 (MQ=255)
aCAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTg > 1:85533/1‑69 (MQ=255)
cGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATg < 1:11469/69‑1 (MQ=255)
cGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATg < 1:1598652/69‑1 (MQ=255)
cGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTAAGATATTTCGTGCATg < 1:2831867/69‑1 (MQ=255)
tCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGaa < 1:1985153/69‑1 (MQ=255)
tCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGaa < 1:2474539/69‑1 (MQ=255)
tCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGaa < 1:1007093/69‑1 (MQ=255)
tCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGaa < 1:1470227/69‑1 (MQ=255)
tCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGaa < 1:365693/69‑1 (MQ=255)
ggTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGc < 1:2755793/68‑1 (MQ=255)
ggTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGc < 1:1187981/68‑1 (MQ=255)
ggTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGc < 1:864537/68‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:2856865/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:2754873/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:3322982/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:2707068/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:340119/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:2428135/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:538081/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:575625/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:2305187/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:2217494/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:1012483/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:1061382/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:2107339/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:1126621/69‑1 (MQ=255)
cactacGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:1154749/69‑1 (MQ=255)
caccacGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc > 1:857440/1‑69 (MQ=255)
caccacGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc > 1:1955804/1‑69 (MQ=255)
caccacGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc > 1:751189/1‑69 (MQ=255)
caccacGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc > 1:2830562/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:3088166/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:999427/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:735527/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:416201/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:136818/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:3388987/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:1436260/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:2161636/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:1502142/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:1551920/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:1577457/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:2330078/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:1686191/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:2555854/1‑69 (MQ=255)
acGCCTGCCACCACGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCt > 1:2671489/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATGTTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:3031398/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:2117792/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:2315317/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:185319/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:115063/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:1312527/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:132811/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:1627313/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:2730513/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:1430032/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:1502899/1‑69 (MQ=255)
aCGTCTGAGTGACCGTTCAGATATTTAGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGa > 1:1499971/1‑69 (MQ=255)
aCGTCAGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGc < 1:120472/53‑1 (MQ=255)
|
TGCCCACCAGGCCAGTTCAGTGACAACGTCCGGGTCTTTAGCAATCACCACGCCGGCCACTACGTCTGAGTGACCGTTCAGATATTTCGTGCATGAATGCAACACCAGATCGGCACCTAATGCCAGCGGA > minE/2302556‑2302685
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
