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 |
824,680 |
T→C |
35.9% |
D172D (GAT→GAC) |
chaC → |
regulatory protein for cation transport |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 824,680 | 0 | T | C | 35.9%
| 37.9
/ 37.1
| 64 | D172D (GAT→GAC) | chaC | regulatory protein for cation transport |
| Reads supporting (aligned to +/- strand): ref base T (28/13); new base C (4/19); total (32/32) |
| Fisher's exact test for biased strand distribution p-value = 1.86e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.32e-01 |
ATGGACGCACAGTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTCCGCTGGGAACCAACGCAC > minE/824616‑824744
|
atgGACGCACAGTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTc > 1:1138881/1‑69 (MQ=255)
atgGACGCACAGTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTc > 1:2541956/1‑69 (MQ=255)
atgGACGCACAGTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTc > 1:330061/1‑69 (MQ=255)
atgGACGCACAGTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTc > 1:3183669/1‑69 (MQ=255)
atgGACGCACAGTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTc > 1:1902199/1‑69 (MQ=255)
gTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGt > 1:888436/1‑68 (MQ=255)
gTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGt > 1:2061953/1‑68 (MQ=255)
gTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGt > 1:2588018/1‑68 (MQ=255)
gTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGt > 1:3072837/1‑68 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCAt > 1:1675614/1‑68 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCAt > 1:1537371/1‑68 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:3145946/1‑69 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:975251/1‑69 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:280221/1‑69 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:3149769/1‑69 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:3373784/1‑69 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:874849/1‑69 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:216239/1‑69 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:1249547/1‑69 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:1251357/1‑69 (MQ=255)
aaCGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATc > 1:1521826/1‑69 (MQ=255)
tgtgTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCgcgc > 1:2459037/1‑65 (MQ=255)
tgtgTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGcc > 1:3237487/1‑66 (MQ=255)
tgtgTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGtt > 1:9491/1‑69 (MQ=255)
tgtgTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGtt > 1:2346830/1‑69 (MQ=255)
tgtgTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGtt > 1:3187329/1‑69 (MQ=255)
tgtgTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGtt > 1:1367911/1‑69 (MQ=255)
tgtgTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGtt > 1:2904044/1‑69 (MQ=255)
tgtgTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGtt > 1:2873567/1‑69 (MQ=255)
tgtgTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGt > 1:3378950/1‑68 (MQ=255)
gtgtTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTg < 1:210613/69‑1 (MQ=255)
gtgtTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTg < 1:2005435/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTTAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:257282/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:2466179/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:1001801/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:2121950/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:924288/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:2222011/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:769747/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:751745/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:670634/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:604066/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:43017/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:3394129/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:1253500/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:327010/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:2780881/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:1902027/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:2905748/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:2492591/69‑1 (MQ=255)
cccGCGACATCCAGAATATGAATCTGACACTCGCGCTCAGGTCATAGCGCCGTTGATTGCGGCGGCGAg < 1:1275311/69‑1 (MQ=255)
aCATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTcc < 1:252658/69‑1 (MQ=255)
aCATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTcc < 1:703908/69‑1 (MQ=255)
aCATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTcc < 1:867596/69‑1 (MQ=255)
aCATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTcc < 1:2714164/69‑1 (MQ=255)
cATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTcc < 1:1679424/68‑1 (MQ=255)
cATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTcc < 1:902837/68‑1 (MQ=255)
cATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTcc < 1:2597721/68‑1 (MQ=255)
cATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTCCg < 1:1711553/69‑1 (MQ=255)
cATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTCCg < 1:3001366/69‑1 (MQ=255)
cAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTCCGCTg > 1:2456573/1‑68 (MQ=255)
cAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTCCGCTg > 1:963883/1‑68 (MQ=255)
tatGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTCCg < 1:46929/60‑1 (MQ=255)
cTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTCCGCTGGGAACCAACGcac < 1:1925011/69‑1 (MQ=255)
|
ATGGACGCACAGTAAACGCCATTGTGTTTATTATGGACCCGCGACATCCAGAATATGAATCTGATACTCGCGCTCAGGTCATCGCGCCGTTGATTGCGGCGGCGAGCGGTCCGCTGGGAACCAACGCAC > minE/824616‑824744
|
| 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
