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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
836,494 |
C→G |
8.0% |
R404R (CGC→CGG) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 836,494 | 0 | C | G | 8.0%
| 179.9
/ 5.2
| 62 | R404R (CGC→CGG) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base C (31/26); new base G (3/2); total (34/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.03e-01 |
AGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCC > minE/836426‑836564
|
aGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTgcgcg > 1:2001257/1‑70 (MQ=255)
ccTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTgcgggcgc < 1:711000/71‑3 (MQ=255)
gCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTg > 1:68702/1‑70 (MQ=255)
aTTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACg > 1:721657/1‑71 (MQ=255)
ttCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACg < 1:2141125/70‑1 (MQ=255)
ttCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACg < 1:3651336/70‑1 (MQ=255)
ttCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACg < 1:2835664/70‑1 (MQ=255)
tCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTa > 1:518274/1‑71 (MQ=255)
ccGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTAt > 1:3076874/1‑71 (MQ=255)
ggTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGc > 1:123649/1‑71 (MQ=255)
gTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCt < 1:2599427/71‑1 (MQ=255)
aCAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTgg > 1:3529363/1‑71 (MQ=255)
aCAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTgg > 1:721740/1‑71 (MQ=255)
aCAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTgg > 1:3192528/1‑71 (MQ=255)
cAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGc > 1:1492931/1‑71 (MQ=255)
cAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGc < 1:1249856/71‑1 (MQ=255)
aGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCg < 1:1119820/71‑1 (MQ=255)
tATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCa < 1:1286605/51‑1 (MQ=255)
tATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACGGATGATGGCGAt > 1:263630/1‑71 (MQ=255)
tATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACGGATGATGGCGAt > 1:140326/1‑71 (MQ=255)
tCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGc < 1:190613/62‑1 (MQ=255)
tGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCa > 1:535422/1‑47 (MQ=255)
tgctgACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACaaa > 1:3777084/1‑71 (MQ=255)
ctgACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACg > 1:1953207/1‑71 (MQ=255)
tgACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAAc > 1:1255969/1‑69 (MQ=255)
gACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACg < 1:3094015/42‑1 (MQ=255)
aCCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTg < 1:862594/70‑1 (MQ=255)
aCCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGc < 1:351318/71‑1 (MQ=255)
ccgccgGTGATACCAAACCGGTACTGCGCGCACTGAAACGTa > 1:2808009/1‑42 (MQ=255)
cgccgGTGATACCAAACCGGTACTGCGCGCACTGAAAc > 1:1782418/1‑38 (MQ=255)
gccgGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGa < 1:3328494/71‑1 (MQ=255)
ccgGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGa > 1:1654898/1‑70 (MQ=255)
ggTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAAc > 1:2637478/1‑71 (MQ=255)
ggTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAAc > 1:3136597/1‑71 (MQ=255)
aTACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGtt < 1:2069211/71‑1 (MQ=255)
aTACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGtt < 1:3892482/71‑1 (MQ=255)
aTACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGtt < 1:3222740/71‑1 (MQ=255)
aTACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGtt < 1:663707/71‑1 (MQ=255)
aTACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGtt < 1:2858762/71‑1 (MQ=255)
aTACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGtt < 1:2773572/71‑1 (MQ=255)
tACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGt < 1:2990046/58‑1 (MQ=255)
aCCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGAt > 1:675893/1‑41 (MQ=255)
aCCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGAt > 1:1998264/1‑41 (MQ=255)
aCCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCg < 1:2118596/67‑1 (MQ=255)
ccAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACg > 1:2390871/1‑55 (MQ=255)
ccAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACg > 1:2734011/1‑55 (MQ=255)
ccAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGa < 1:3570913/70‑1 (MQ=255)
ccAAACCGGTACTGCGCGCACTGAAACCTATGCTGGc < 1:1992818/37‑1 (MQ=255)
cAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACg > 1:1338379/1‑71 (MQ=255)
cAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACg > 1:2032387/1‑71 (MQ=255)
cAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACg > 1:1592283/1‑71 (MQ=255)
aaaCCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACa < 1:3699867/49‑1 (MQ=255)
aaaCCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACgg > 1:1705896/1‑71 (MQ=255)
aaCCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGt > 1:617399/1‑41 (MQ=255)
aaCCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACgg > 1:837261/1‑70 (MQ=255)
aaCCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACgg > 1:3178845/1‑70 (MQ=255)
ccGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTaa < 1:185515/71‑1 (MQ=255)
ccGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTa < 1:2467750/70‑1 (MQ=255)
ggTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTa > 1:3566989/1‑68 (MQ=255)
ggTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAg < 1:3332000/71‑1 (MQ=255)
aCTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACgg > 1:74235/1‑63 (MQ=255)
cTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTg < 1:2489591/70‑1 (MQ=255)
tGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGa < 1:937292/70‑1 (MQ=255)
tGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGAAAAGt > 1:2052142/1‑67 (MQ=255)
gcgcgcACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATa > 1:1713103/1‑71 (MQ=255)
gcgcgcACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATa > 1:1856843/1‑71 (MQ=255)
cgcACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATAccc < 1:844213/71‑1 (MQ=255)
|
AGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCTGGCGATGCGTCATTACAAACGTGCTGAAACCGTTGACGGTAAAGTTGATACCC > minE/836426‑836564
|
| 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
