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 R2
|
370 |
72.1 |
3738297 |
91.5% |
3420541 |
62.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
775,571 |
T→A |
13.9% |
D398E (GAT→GAA) |
icd → |
isocitrate dehydrogenase, specific for NADP+ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 775,571 | 0 | T | A | 13.9%
| 193.0
/ 21.4
| 72 | D398E (GAT→GAA) | icd | isocitrate dehydrogenase, specific for NADP+ |
| Reads supporting (aligned to +/- strand): ref base T (30/32); new base A (3/7); total (33/39) |
| Fisher's exact test for biased strand distribution p-value = 3.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.82e-01 |
TAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTG > minE/775501‑775640
|
tAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTgatggat > 1:2401662/1‑71 (MQ=255)
tAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTgatggat > 1:2905505/1‑71 (MQ=255)
tAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTgatggat > 1:97970/1‑71 (MQ=255)
aaTTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTgatggatg > 1:3383743/1‑71 (MQ=255)
aGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTgatggat > 1:3037691/1‑61 (MQ=255)
aGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAAc > 1:2725117/1‑71 (MQ=255)
aGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAAc > 1:2653645/1‑71 (MQ=255)
aGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAAc > 1:2162471/1‑71 (MQ=255)
gTATGGAAGGCGCAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGGCGCTAAGctg < 1:2020763/71‑1 (MQ=255)
aTGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAActgct > 1:3227925/1‑71 (MQ=255)
aTGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAActgct > 1:947763/1‑71 (MQ=255)
aTGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAActgct > 1:257647/1‑71 (MQ=255)
aTGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAActgct > 1:1981864/1‑71 (MQ=255)
aTGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAActgct > 1:462304/1‑71 (MQ=255)
ggAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAActgct < 1:1197818/69‑1 (MQ=255)
gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGatggatgg < 1:865985/56‑1 (MQ=255)
gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGatggatgg < 1:850966/56‑1 (MQ=255)
gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGa < 1:565330/70‑1 (MQ=255)
gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGa < 1:27788/70‑1 (MQ=255)
gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGa < 1:1786808/70‑1 (MQ=255)
gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGa < 1:1088655/70‑1 (MQ=255)
gAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGa < 1:2949979/70‑1 (MQ=255)
aGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAAt < 1:3096395/71‑1 (MQ=255)
gcgcAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGt < 1:1772844/71‑1 (MQ=255)
gcgcAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGt < 1:831941/71‑1 (MQ=255)
cgcAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGatggatgg > 1:1141043/1‑51 (MQ=255)
gcAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGAAATGt < 1:3233730/69‑1 (MQ=255)
gcAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGAAATGt < 1:1983688/69‑1 (MQ=255)
gcAATCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGAAATGt < 1:1362592/69‑1 (MQ=255)
aaTCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGt < 1:1612837/67‑1 (MQ=255)
tCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGa > 1:1675238/1‑60 (MQ=25)
tCAATGCCAAGACCGTAACTTATGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGa > 1:3710811/1‑60 (MQ=25)
tCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCa < 1:3367238/68‑1 (MQ=255)
tCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCa < 1:2149317/68‑1 (MQ=255)
tCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCa < 1:1345910/68‑1 (MQ=255)
aaCGCGAAAACCGTAACCTATGACTTCGAGCGTCTgatggat > 1:833945/1‑42 (MQ=255)
aaCGCGAAAACCGTAACCTATGACTTCGAGCGTCTgatggat > 1:2577245/1‑42 (MQ=255)
aaCGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGtt > 1:1676387/1‑71 (MQ=255)
aaCGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGtt > 1:1790612/1‑71 (MQ=255)
cgcgAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTg < 1:707240/71‑1 (MQ=255)
cgcgAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTg < 1:3490477/71‑1 (MQ=255)
aaaaCCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGATAAACTGCTGAAATGTTCAGAGTTTGGTg < 1:1192230/70‑1 (MQ=255)
aaCCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGAcg > 1:2773391/1‑71 (MQ=255)
aaCCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGAcg > 1:998428/1‑71 (MQ=255)
aaCCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGAcg > 1:1701850/1‑71 (MQ=255)
tAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGatc < 1:1080245/71‑1 (MQ=255)
tAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGat > 1:2500039/1‑70 (MQ=255)
tAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGat > 1:698805/1‑70 (MQ=255)
tAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGat > 1:1284236/1‑70 (MQ=255)
tAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGat > 1:1718344/1‑70 (MQ=255)
aaCCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTg < 1:3143671/59‑1 (MQ=255)
aCCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGatca < 1:54397/70‑1 (MQ=255)
aCCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGatca < 1:1958724/70‑1 (MQ=255)
aCCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGatca < 1:3105006/70‑1 (MQ=255)
aCCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGatca < 1:1672524/70‑1 (MQ=255)
aCCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGatca < 1:1844675/70‑1 (MQ=255)
cTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGatcatc > 1:1050187/1‑70 (MQ=255)
cTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCg < 1:1942565/71‑1 (MQ=255)
tGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGa > 1:1754119/1‑57 (MQ=255)
tGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGa > 1:1861302/1‑57 (MQ=255)
tGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGa > 1:1159902/1‑57 (MQ=255)
tGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCg > 1:3549077/1‑68 (MQ=255)
tGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCg > 1:300805/1‑68 (MQ=255)
tGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaa < 1:3630774/71‑1 (MQ=255)
tGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGaaa < 1:2555556/71‑1 (MQ=255)
tGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGaaa < 1:1191616/71‑1 (MQ=255)
tGACTTCGAACGTCTGATGGAAGGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGaaa < 1:34733/71‑1 (MQ=255)
gACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCag < 1:103018/46‑1 (MQ=255)
gACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCag < 1:2237383/46‑1 (MQ=255)
gACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCag < 1:2783874/46‑1 (MQ=255)
aCTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGa > 1:3101489/1‑55 (MQ=255)
aCTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGa > 1:1442325/1‑55 (MQ=255)
aCTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGa > 1:804056/1‑55 (MQ=255)
cTTCGAACGTCTGATGTAAGGCGCTAAGCTCCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACa > 1:2631752/1‑71 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACAt < 1:307199/69‑1 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATg < 1:341775/70‑1 (MQ=255)
gAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGt > 1:64222/1‑70 (MQ=255)
cTGATGGATGGCGCTAAACTTCTGAAATGTTCTGAGTTTGGTGACGCGATCATCGAAAACATGTaa < 1:3472889/66‑1 (MQ=255)
cTGATGGATGGCGCTAAACTGCTGAAATGTTCagag > 1:1018063/1‑36 (MQ=255)
cTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGtt < 1:1804689/38‑1 (MQ=255)
cTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCg > 1:25763/1‑71 (MQ=255)
tGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCg > 1:1533479/1‑70 (MQ=255)
gatggatgGCGCTAAACTGCTGAAATGTTCAGAGTTTg > 1:1203886/1‑38 (MQ=255)
gatggatgGCGCTAAACTGCTGAAATGTTCAGAGTTTg > 1:1489239/1‑38 (MQ=255)
gatggatgGCGCTAAACTGCTGAAATGTTCAGAGTTTg > 1:1494545/1‑38 (MQ=255)
atggatggCGCTAAACTGCTGAAATGTTCAGAGTTTgg < 1:750517/38‑1 (MQ=255)
atggatggCGCTAAACTGCTGAAATGTTCAGAGTTTgg < 1:2896436/38‑1 (MQ=255)
atggGGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTg < 1:2329601/71‑1 (MQ=255)
atggCGCTAAACTGCTGAAGTGTTCAGAGTTTGGTGACGCGATCATCGAAAAc < 1:1943057/53‑1 (MQ=255)
atggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAAc < 1:1919265/53‑1 (MQ=255)
atggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAAc < 1:2360490/53‑1 (MQ=255)
atggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTg < 1:2681799/71‑1 (MQ=255)
atggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTg < 1:2830556/71‑1 (MQ=255)
|
TAATTGTTAAAGGTATGGAAGGCGCAATCAACGCGAAAACCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTG > minE/775501‑775640
|
| 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
