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 |
1,220,863 |
T→C |
22.8% |
L230L (CTT→CTC) |
yebS → |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,220,863 | 0 | T | C | 22.8%
| 58.6
/ 12.4
| 48 | L230L (CTT→CTC) | yebS | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (6/31); new base C (6/5); total (12/36) |
| Fisher's exact test for biased strand distribution p-value = 1.76e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTGGTCGCTGCC > minE/1220808‑1220918
|
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGAGGAGAAACTTCGTGTCTGTCTTg < 1:83185/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:3333961/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:2589416/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:2639415/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:3059848/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:3415897/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:1457502/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:512064/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:1306460/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:1279082/69‑1 (MQ=255)
aaCTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:846284/69‑1 (MQ=255)
gCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:3003689/59‑1 (MQ=255)
gCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGc > 1:2391073/1‑64 (MQ=255)
gCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAttt < 1:2048924/69‑1 (MQ=255)
gCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAttt < 1:2823988/69‑1 (MQ=255)
gCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAttt < 1:2255395/69‑1 (MQ=255)
gCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTCTCTTGGGTGc > 1:403186/1‑64 (MQ=255)
cGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAtttt < 1:2813784/69‑1 (MQ=255)
cGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAtttt < 1:3087109/69‑1 (MQ=255)
cGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAtttt < 1:2498015/69‑1 (MQ=255)
cGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAtttt < 1:2505897/69‑1 (MQ=255)
cGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAtttt < 1:107209/69‑1 (MQ=255)
cGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAtttt < 1:2171003/69‑1 (MQ=255)
aGCGCCCCGCTACGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGc < 1:79393/62‑1 (MQ=255)
aGCGCCCCGCTACGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGc < 1:633530/62‑1 (MQ=255)
aGCGCCCCGCTACGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGc < 1:331318/62‑1 (MQ=255)
aGCGCCCCGCTACGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGc < 1:1513441/62‑1 (MQ=255)
ccGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGc < 1:70785/69‑1 (MQ=255)
ccGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGc < 1:2237380/69‑1 (MQ=255)
ccGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGc < 1:697773/69‑1 (MQ=255)
ccGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGc < 1:324349/69‑1 (MQ=255)
gCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTg < 1:3133200/37‑1 (MQ=255)
tACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTgg > 1:1974911/1‑69 (MQ=255)
aCGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTGGt < 1:1071902/69‑1 (MQ=255)
aCGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTGGt < 1:517663/69‑1 (MQ=255)
aCGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTGGt < 1:2474917/69‑1 (MQ=255)
aCGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTAc > 1:1069114/1‑47 (MQ=255)
aCGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCTGa > 1:3413768/1‑59 (MQ=255)
aCGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCTGa > 1:3179657/1‑59 (MQ=255)
aCGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCTGa > 1:2157792/1‑59 (MQ=255)
aCGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCTGa > 1:769708/1‑59 (MQ=255)
aCGCGTAGGGACGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCTGa > 1:2733046/1‑59 (MQ=255)
cgcgTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTGGt < 1:2710328/68‑1 (MQ=255)
gTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCAtttt < 1:146314/41‑1 (MQ=255)
gggACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTGGTCGCTGcc > 1:1329143/1‑69 (MQ=255)
gggACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTGGTCGCTGcc > 1:651424/1‑69 (MQ=255)
gggACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTGGTCGCTGcc > 1:773898/1‑69 (MQ=255)
cGAGAAACTCCGTGTCTGTCTTGGGTGCCATTTTACCGGc < 1:1864004/40‑1 (MQ=255)
|
AACTGTGGGAGCGATTTTATCCGCAGCGCCCCGCTACGCGTAGGGACGAGAAACTTCGTGTCTGTCTTGGGTGCCATTTTACCGGCTATCCAGATCAGCGTGGTCGCTGCC > minE/1220808‑1220918
|
| 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
