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 |
1,480,246 |
C→T |
40.5% |
G16G (GGC→GGT) |
glpA → |
sn‑glycerol‑3‑phosphate dehydrogenase (anaerobic), large subunit, FAD/NAD(P)‑binding |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,480,246 | 0 | C | T | 40.5%
| 29.4
/ 39.8
| 64 | G16G (GGC→GGT) | glpA | sn‑glycerol‑3‑phosphate dehydrogenase (anaerobic), large subunit, FAD/NAD(P)‑binding |
| Reads supporting (aligned to +/- strand): ref base C (28/10); new base T (16/10); total (44/20) |
| Fisher's exact test for biased strand distribution p-value = 4.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGTGATTTTGGTTGAGC > minE/1480179‑1480313
|
cGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTggcggct > 1:1587845/1‑68 (MQ=255)
cGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTggcggcg > 1:2838512/1‑69 (MQ=255)
cGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTggcggcg > 1:2509464/1‑69 (MQ=255)
cGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTggcggcg > 1:1770474/1‑69 (MQ=255)
cGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTggcggcg > 1:2273823/1‑69 (MQ=255)
cGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTggcggcg > 1:702018/1‑69 (MQ=255)
ggATAACAATGAAAACTCGCGACTCTCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAg > 1:3355764/1‑69 (MQ=255)
ggATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAg > 1:895027/1‑69 (MQ=255)
ggATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAg > 1:260176/1‑69 (MQ=255)
aCAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCggg > 1:1431792/1‑69 (MQ=255)
aCAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCgg > 1:1773981/1‑68 (MQ=255)
aCAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCgg > 1:752899/1‑68 (MQ=255)
aCAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCgg > 1:2269627/1‑68 (MQ=255)
aCAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCg > 1:2671398/1‑67 (MQ=255)
aCAATCAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCgg < 1:2544358/68‑1 (MQ=255)
aCAATCAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCgg < 1:1153049/68‑1 (MQ=255)
aCAATCAAAACCCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCgg < 1:3263568/68‑1 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCggg > 1:2876083/1‑68 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:277710/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:1819857/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:747877/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:2090430/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:3153620/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:1635610/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:3222703/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:1415459/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:1392281/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:2571564/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:756595/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:3335924/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:2390224/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:2484132/1‑69 (MQ=255)
cAATGAAAACTCGCGACTCGCAATCAAGAGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGa > 1:484015/1‑69 (MQ=255)
aaTGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGTGAGCCGGGa > 1:671671/1‑68 (MQ=255)
aaTGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGAt > 1:2881839/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:3328957/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:1806525/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:2803119/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:1810921/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:3018417/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:1558514/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:2644857/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:3061738/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:2296977/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:1046944/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:2348412/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc > 1:3150354/1‑69 (MQ=255)
aaaaCTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGc > 1:2943795/1‑68 (MQ=255)
gcgACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGCCCGCGAc < 1:1770821/68‑1 (MQ=255)
gACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCgg < 1:847725/53‑1 (MQ=255)
gACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGcc < 1:244818/60‑1 (MQ=255)
gACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGACgg < 1:2731633/53‑1 (MQ=255)
aCTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCgg < 1:2177387/52‑1 (MQ=255)
tCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:1559379/59‑1 (MQ=255)
tCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:2492333/59‑1 (MQ=255)
tCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:1662472/59‑1 (MQ=255)
tCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:2755077/59‑1 (MQ=255)
tCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:2674552/59‑1 (MQ=255)
tCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:2152903/59‑1 (MQ=255)
tCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:2347488/59‑1 (MQ=255)
tCAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:59892/59‑1 (MQ=255)
cAAGTGACGTGATTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:1093270/58‑1 (MQ=255)
gATTATCATTGGCGGCGGCGCAACGTGAGCCGGGATAGCCCGCGACtgtg > 1:2117212/1‑50 (MQ=39)
gATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGt > 1:557883/1‑69 (MQ=255)
gATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGt > 1:733874/1‑69 (MQ=255)
gATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGt > 1:1195372/1‑69 (MQ=255)
aTTATCATTGGCGGTGGCGCAACGGGAGCCGGGATTGCCCGCGACtg < 1:1261886/47‑1 (MQ=255)
aTTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGTg > 1:863736/1‑69 (MQ=255)
aTTGGCGGCGGCGCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGTGATTTTg < 1:2041198/69‑1 (MQ=255)
ttGGCGGCGGCGCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGTGATTTTg < 1:2520318/68‑1 (MQ=255)
gcggcgCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGTGGGCTGCGCGTGATTTTGGTTGAgc < 1:1445026/69‑1 (MQ=255)
gcggcgCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGTGATTTTGGTTGAgc < 1:417972/69‑1 (MQ=255)
gcggcgCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGTGATTTTGGTTGAgc < 1:2543925/69‑1 (MQ=255)
gcggcgCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGTGATTTTGGTTGAgc < 1:117274/69‑1 (MQ=255)
|
CGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTGACGTGATTATCATTGGCGGCGGCGCAACGGGAGCCGGGATTGCCCGCGACTGTGCCCTGCGCGGGCTGCGCGTGATTTTGGTTGAGC > minE/1480179‑1480313
|
| 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
