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 |
2,479,154 |
G→A |
23.8% |
A113A (GCG→GCA) |
phoU → |
DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,479,154 | 0 | G | A | 23.8%
| 97.5
/ 22.5
| 75 | A113A (GCG→GCA) | phoU | DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base G (19/38); new base A (6/12); total (25/50) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.84e-01 |
TAAAACCATTGCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTGGAGTCGCTGGGCCGTCAT > minE/2479094‑2479217
|
tAAAACCATTGCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGgaga < 1:244354/68‑1 (MQ=255)
aaaCCATTGCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGaaa > 1:1039069/1‑68 (MQ=255)
aaaCCATTGCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAAt > 1:1349356/1‑69 (MQ=255)
aaaCCATTGCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAAt > 1:1541149/1‑69 (MQ=255)
aaaCCATTGCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAAt > 1:2481336/1‑69 (MQ=255)
aaaCCATTGCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAAt > 1:2709044/1‑69 (MQ=255)
aaaCCATTGCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAAt > 1:1115380/1‑69 (MQ=255)
gCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTccc > 1:2990508/1‑67 (MQ=255)
gCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTccc > 1:2988807/1‑67 (MQ=255)
gCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTccc > 1:428341/1‑67 (MQ=255)
gCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTccc > 1:547567/1‑67 (MQ=255)
gCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTccc > 1:1775180/1‑67 (MQ=255)
gCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATACTccc > 1:3062528/1‑67 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:3169869/69‑1 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:2643911/69‑1 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:276698/69‑1 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:604429/69‑1 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:1989831/69‑1 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:1946244/69‑1 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:1742999/69‑1 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:1287992/69‑1 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:1346193/69‑1 (MQ=255)
aGCTGGAGCGTATTGGCGACGTGGAGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:77141/69‑1 (MQ=255)
gCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCagcagc < 1:2654266/68‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTTGAGAAAtt < 1:3308700/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:2776886/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:335393/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:684239/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:3277864/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:305730/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:2923977/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:701667/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:1025019/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:1606906/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:1802003/51‑1 (MQ=255)
gCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCACTGGAGAAAtt < 1:2029959/51‑1 (MQ=255)
gTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGt < 1:3350322/69‑1 (MQ=255)
ggCGACGTTGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTg < 1:2234054/69‑1 (MQ=255)
ggCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGc > 1:387198/1‑67 (MQ=255)
ggCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCt > 1:1450014/1‑68 (MQ=255)
ggCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCt > 1:770540/1‑68 (MQ=255)
ggCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCt > 1:2322971/1‑68 (MQ=255)
ggCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCt > 1:3300391/1‑68 (MQ=255)
ggCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCt > 1:1352993/1‑68 (MQ=255)
ggCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTg < 1:582551/69‑1 (MQ=255)
ggCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTg < 1:3436101/69‑1 (MQ=255)
cGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAg < 1:56639/69‑1 (MQ=255)
cGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAg < 1:1621491/69‑1 (MQ=255)
cGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAg < 1:2111993/69‑1 (MQ=255)
cGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAg < 1:2833099/69‑1 (MQ=255)
gTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAg < 1:2884828/68‑1 (MQ=255)
gTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAg < 1:2702495/68‑1 (MQ=255)
aCAAAATCTGCCGTACTGCACTGGAGAAATTCTCCCAGCAGCATCa > 1:1305993/1‑46 (MQ=255)
aCAAAATCTGCCGTACTGCACTGGAGAAATTCTCCCAGCAGCATCAGCCATTGCTGGTAAGTCTGGAg > 1:1894821/1‑68 (MQ=255)
aCAAAATCTGCCGTACTGCACTGGAGAAATTCTCCCAGCAGCATCAGCCATTGCTGGTAAGTCTGGAGt > 1:2615109/1‑69 (MQ=255)
aCAAAATCTGCCGTACTGCACTGGAGAAATTCTCCCAGCAGCATCAGCCATTGCTGGTAAGTCTGGAGt > 1:1627013/1‑69 (MQ=255)
aCAAAATCTGCCGTACTGCACTGGAGAAATTCTCCCAGCAGCATCAGCCATTGCTGGTAAGTCTGGAGt > 1:1899125/1‑69 (MQ=255)
aCAAAATCTGCCGTACTGCACTGGAGAAATTCTCCCAGCAGCATCAGCCATTGCTGGTAAGTCTGGAGt > 1:679757/1‑69 (MQ=255)
cAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTGGAGTc < 1:3005602/69‑1 (MQ=255)
cAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTGGAGTc < 1:624877/69‑1 (MQ=255)
cAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTGGAGTc < 1:1414510/69‑1 (MQ=255)
cAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTGGAGTc < 1:1815126/69‑1 (MQ=255)
cTGCCGTACTCCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTg < 1:2530073/49‑1 (MQ=255)
gTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTGGAGTCGCTGGGc < 1:1169420/65‑1 (MQ=255)
tACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTTGTAAg < 1:2924973/48‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTg < 1:861149/50‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTg < 1:558626/50‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTg < 1:1202794/50‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTg < 1:1231437/50‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTg < 1:3350696/50‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTg < 1:1376668/50‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTg < 1:2379838/50‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTg < 1:2188515/50‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTg < 1:1643648/50‑1 (MQ=255)
cTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTGGAGTCGCTGGGCCGTCAt > 1:3421268/1‑68 (MQ=255)
|
TAAAACCATTGCCGAGCTGGAGCGTATTGGCGACGTGGCGGACAAAATCTGCCGTACTGCGCTGGAGAAATTCTCCCAGCAGCATCAGCCGTTGCTGGTAAGTCTGGAGTCGCTGGGCCGTCAT > minE/2479094‑2479217
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
