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 |
1,114,060 |
C→A |
45.7% |
L248L (CTG→CTT) |
pps ← |
phosphoenolpyruvate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,114,060 | 0 | C | A | 45.7%
| 6.5
/ 33.5
| 35 | L248L (CTG→CTT) | pps | phosphoenolpyruvate synthase |
| Reads supporting (aligned to +/- strand): ref base C (17/2); new base A (10/6); total (27/8) |
| Fisher's exact test for biased strand distribution p-value = 1.05e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.53e-01 |
CATGCGGATTTTTTTCGACCCCATGGTGCGGCGCACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCACCCTGCACGACCATCTCA > minE/1114003‑1114120
|
cATGCGGATTTTTTTCGACCCCATGGTGCGGCGCACGATAGCCGGGCGATTCGCCGCCAGTGTCGGttt > 1:1133358/1‑69 (MQ=255)
aTGCGGATTTTTTTCGACCCCATGGTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTa > 1:2620023/1‑69 (MQ=255)
aTGCGGATTTTTTTCGACCCCATGGTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTa > 1:453238/1‑69 (MQ=255)
aTGCGGATTTTTTTCGACCCCATGGTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTa > 1:3377156/1‑69 (MQ=255)
aTGCGGATTTTTTTCGACCCCATGGTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTa > 1:2989575/1‑69 (MQ=255)
aTGCGGATTTTTTTCGACCCCATGGTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTa > 1:2751304/1‑69 (MQ=255)
aTGCGGATTTTTTTCGACCCCATGGTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTa > 1:2718366/1‑69 (MQ=255)
aTGCGGATTTTTTTCGACCCCATGGTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTa > 1:2447483/1‑69 (MQ=255)
aTGCGGATTTTTTTCGACCCCATGGTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTa > 1:1556679/1‑69 (MQ=255)
aTGCGGATTTTTTTCGACCCCATGGTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTa > 1:1667491/1‑69 (MQ=255)
aTGCGGATTTTTTTAGACCCCATGGTGCGGCGCAAAATAGCCGGGCGATTCGCAGCAAGTGTCGGttt > 1:2762440/1‑68 (MQ=255)
ggTGCGGCGCACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGtt > 1:685895/1‑69 (MQ=255)
ggTGCGGCGCACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGtt > 1:1340944/1‑69 (MQ=255)
ggTGCGGCGCACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGtt > 1:1404951/1‑69 (MQ=255)
ggTGCGGCGCACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGtt > 1:3060073/1‑69 (MQ=255)
ggTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTATGCACATAAAACTCATCCTGGtt < 1:2503330/69‑1 (MQ=255)
ggTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTATGCACATAAAACTCATCCGGGtt < 1:2171284/69‑1 (MQ=255)
ggTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTATGCACATAAAACTCATCCGGGtt < 1:3202119/69‑1 (MQ=255)
ggTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTATGCACATAAAACTCATCCGGGtt < 1:2886849/69‑1 (MQ=255)
ggTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTATGCACATAAAACTCATCCGGGtt < 1:275483/69‑1 (MQ=255)
ggTGCGGCGCACAATAGCCGGGCGATTCGCCGCAAGTGTCGGTTTATGCACATAAAACTCATCCGGGtt < 1:2499302/69‑1 (MQ=255)
cACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCAcc > 1:1120909/1‑69 (MQ=255)
cACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCAcc > 1:3033651/1‑69 (MQ=255)
cACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCAcc > 1:3121984/1‑69 (MQ=255)
cACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCAcc > 1:2008341/1‑69 (MQ=255)
gCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCACCCTGCACg > 1:729751/1‑69 (MQ=255)
tCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCa < 1:2296728/50‑1 (MQ=255)
tCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCa < 1:2228181/50‑1 (MQ=255)
tCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCACCCTGCACGACCATCTCa > 1:1637574/1‑68 (MQ=255)
tCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCACCCTGCACGACCATCTCa > 1:245147/1‑68 (MQ=255)
tCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCACCCTGCACGACCATCTCa > 1:1715707/1‑68 (MQ=255)
tCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCACCCTGCACGACCATCTCa > 1:2301383/1‑68 (MQ=255)
tCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCACCCTGCACGACCATCTCa > 1:530686/1‑68 (MQ=255)
tCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCACCCTGCACGACCATCTCa > 1:901100/1‑68 (MQ=255)
tCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTAAACCGCACCCTGCACGACCATCTCa > 1:3107696/1‑68 (MQ=255)
|
CATGCGGATTTTTTTCGACCCCATGGTGCGGCGCACGATAGCCGGGCGATTCGCCGCCAGTGTCGGTTTATGCACGTAAAACTCATCCGGGTTAACCGCACCCTGCACGACCATCTCA > minE/1114003‑1114120
|
| 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
