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 |
597,804 |
C→T |
52.7% |
A49A (GCC→GCT) |
dmsA → |
dimethyl sulfoxide reductase, anaerobic, subunit A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 597,804 | 0 | C | T | 52.7%
| 1.3
/ 60.7
| 71 | A49A (GCC→GCT) | dmsA | dimethyl sulfoxide reductase, anaerobic, subunit A |
| Reads supporting (aligned to +/- strand): ref base C (9/24); new base T (21/16); total (30/41) |
| Fisher's exact test for biased strand distribution p-value = 1.64e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACATTACCTTTTAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACTGTGGTAGT > minE/597762‑597864
|
aaCATTACCTTTTAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGt > 1:3113800/1‑69 (MQ=255)
aaCATTACCTTTTAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGt < 1:2533997/69‑1 (MQ=255)
aaCATTACCTTTTAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGt < 1:2423035/69‑1 (MQ=255)
aaCATTACCTTTTAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGt > 1:2372025/1‑69 (MQ=255)
aCCTTTTAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTg < 1:1676050/69‑1 (MQ=255)
ttttAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTgg < 1:1756379/67‑1 (MQ=255)
ttAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAgcg > 1:629780/1‑69 (MQ=255)
ttAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAgcg > 1:157226/1‑69 (MQ=255)
gTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:958353/68‑1 (MQ=255)
gTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:48902/68‑1 (MQ=255)
gTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:2146763/68‑1 (MQ=255)
gTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:2034830/68‑1 (MQ=255)
gTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:118616/68‑1 (MQ=255)
gTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:122513/68‑1 (MQ=255)
tCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:255233/67‑1 (MQ=255)
cGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:1026078/66‑1 (MQ=255)
cGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:1251893/66‑1 (MQ=255)
ggATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGTTTATCTGGAGCGCCTGTa < 1:2830454/69‑1 (MQ=255)
ggATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTg > 1:274796/1‑67 (MQ=255)
ggATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTg > 1:2517543/1‑67 (MQ=255)
ggATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTg > 1:500003/1‑67 (MQ=255)
ggATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTa < 1:856925/69‑1 (MQ=255)
aTTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGcc < 1:204630/63‑1 (MQ=255)
aTTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTAc < 1:567/68‑1 (MQ=255)
tGCGCACGCTGTCGATAGCGCAATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTAc < 1:1918899/66‑1 (MQ=255)
cACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAAc < 1:1052975/69‑1 (MQ=255)
cACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAAc < 1:2825391/69‑1 (MQ=255)
cACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAAc < 1:874172/69‑1 (MQ=255)
cACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAAc < 1:286662/69‑1 (MQ=255)
cACGCTGTCGATAGCGCCAATCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAAc < 1:319721/69‑1 (MQ=255)
gTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTAc < 1:1169745/56‑1 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa > 1:2584807/1‑55 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:1023158/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:517976/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:835115/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:2848216/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:2862849/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:3037386/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:3048703/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:356400/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:476366/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:263555/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:268347/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:1582571/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:234549/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:1585875/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:2339738/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:2208690/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:148881/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:1707602/1‑64 (MQ=255)
cGATAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATATGGAGCGCCTGTACAGTTAACtgt > 1:3104685/1‑64 (MQ=255)
cGATAGCGCTAGTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACtgt > 1:1501181/1‑64 (MQ=255)
gATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACTGTGGTAGt > 1:3406264/1‑69 (MQ=255)
gATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACTGTGGTAGt > 1:1191187/1‑69 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTTCa < 1:1994596/52‑1 (MQ=39)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:2392480/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:3283008/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:943805/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:1160874/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:2167991/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:1758901/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:558164/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:532730/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:503039/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:2000794/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:1237932/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:2048840/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:445416/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACa < 1:2114090/52‑1 (MQ=255)
tAGCGCTATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCCCCTGTACa < 1:301011/52‑1 (MQ=255)
gcCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTAc < 1:855469/47‑1 (MQ=255)
|
AACATTACCTTTTAGTCGGATTGCGCACGCTGTCGATAGCGCCATTCCAACAAAATCAGACGAAAAGGTTATCTGGAGCGCCTGTACAGTTAACTGTGGTAGT > minE/597762‑597864
|
| 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
