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 |
834,620 |
T→A |
28.6% |
G1026G (GGT→GGA) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,620 | 0 | T | A | 28.6%
| 102.6
/ 54.5
| 70 | G1026G (GGT→GGA) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (28/22); new base A (7/13); total (35/35) |
| Fisher's exact test for biased strand distribution p-value = 1.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.63e-01 |
GCAAAATTATCTCCAGCCCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAC > minE/834556‑834689
|
gcAAAATTATCTCCAGCCCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACAcc < 1:1113689/71‑1 (MQ=255)
cAAAATTATCTCCAGCCCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTacac > 1:2292212/1‑69 (MQ=255)
aaaaTTATCTCCAGCCCGACCTGGTCTGGTCTGGATGATGAACACGTTTCTTACAACGCCGGTTACACCaa > 1:1759730/1‑71 (MQ=255)
aaaTTATCTCCAGCCCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAAc > 1:3283398/1‑71 (MQ=255)
aaaTTATCTCCAGCCCCACCTGGTCCGGTCTGGAAAGCGATCACGTCTCCTATAACGCGGGATACACCAAc > 1:3884871/1‑71 (MQ=255)
aaTTATCTCCAGCCCGCCCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAAc > 1:2240582/1‑70 (MQ=255)
aTTATCTCCAGCCCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTa > 1:3101921/1‑62 (MQ=255)
aTTATCTCCAGCCCCACCTGGTCCGGTCTGGAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGt < 1:2394697/71‑1 (MQ=255)
aTTATCTCCAGCCCCACCTGGTCCGGTCTGGAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGt < 1:2390005/71‑1 (MQ=255)
ttATCTCCAGCCCCACCTGGTCCGGTCTGGAAAGCGATCACGTCTCCTATAACGCGGGATa < 1:3339452/61‑1 (MQ=255)
ttATCTCCAGCCCCACCTGGTCCGGTCTGGAAAGCGATCACGTCTCCTATAACGCGGGATa < 1:2956570/61‑1 (MQ=255)
cAGCCCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGa < 1:3493738/69‑1 (MQ=255)
cAGCCCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGc > 1:1885374/1‑71 (MQ=255)
ccGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGAt > 1:2931444/1‑71 (MQ=255)
cGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATc > 1:2420899/1‑71 (MQ=255)
ccTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa < 1:997730/71‑1 (MQ=255)
ctggtccggtCTGGAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCat < 1:2195101/58‑2 (MQ=255)
gtctggtctgGAAGATGAACACTTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa < 1:2066342/67‑1 (MQ=255)
gtccggtctgGAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTgg < 1:3774248/70‑1 (MQ=255)
ggtctggAAGATTAACACGTTTCTTACAACGCCGGTTa < 1:3135240/38‑1 (MQ=255)
gtctggAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACg > 1:1977973/1‑71 (MQ=255)
gtctggAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACg > 1:578677/1‑71 (MQ=255)
tctggAAAGCGATCACGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACg < 1:3428785/70‑1 (MQ=255)
gAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctct < 1:1248991/70‑1 (MQ=255)
gAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctct < 1:887036/70‑1 (MQ=255)
gAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctct < 1:1625502/70‑1 (MQ=255)
aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg > 1:3331147/1‑71 (MQ=255)
aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg > 1:3472485/1‑71 (MQ=255)
aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg > 1:1127115/1‑71 (MQ=255)
aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg > 1:1381597/1‑71 (MQ=255)
aGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTg > 1:587615/1‑71 (MQ=255)
gATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTgg < 1:893974/71‑1 (MQ=255)
gATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTgg < 1:2667360/71‑1 (MQ=255)
aTGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCa < 1:897873/53‑1 (MQ=255)
tGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtc > 1:2139387/1‑71 (MQ=255)
gAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATg > 1:667060/1‑53 (MQ=255)
aaCACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt < 1:552425/71‑1 (MQ=255)
aaCACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGgtcgt < 1:1873440/71‑1 (MQ=255)
tcacGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGctgt < 1:1475867/61‑3 (MQ=255)
tcacGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGgacgc > 1:1666397/2‑69 (MQ=255)
acacGTTTCTTACAACGCCGGTTACACCAACGTTCa > 1:3526942/1‑36 (MQ=255)
acacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAg > 1:1072750/1‑40 (MQ=255)
acacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCg > 1:2481734/1‑54 (MQ=255)
acacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCg > 1:1314246/1‑54 (MQ=255)
cacGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctc > 1:189805/1‑60 (MQ=255)
cacGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGctgtc > 1:826260/1‑62 (MQ=255)
acGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTa > 1:2798653/1‑54 (MQ=255)
acGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTa > 1:1628715/1‑54 (MQ=255)
acGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTa > 1:1998141/1‑54 (MQ=255)
acGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGgacgc < 1:159881/68‑2 (MQ=255)
acGTCTCCTATAACGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAg > 1:1962048/1‑71 (MQ=255)
cGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTg < 1:1888435/40‑1 (MQ=255)
tCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCa > 1:3464236/1‑65 (MQ=255)
tCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCa > 1:3565001/1‑65 (MQ=255)
tCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACt > 1:1259746/1‑71 (MQ=255)
tataaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCa < 1:2323948/59‑1 (MQ=255)
aCAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTa < 1:2709250/70‑1 (MQ=255)
taaCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTa < 1:3553339/68‑1 (MQ=255)
aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCAt < 1:1515248/37‑1 (MQ=255)
aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCAt < 1:1747078/37‑1 (MQ=255)
aaCGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt > 1:2042326/1‑69 (MQ=255)
aCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCa < 1:965805/70‑1 (MQ=255)
aCGCGGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGGACGCCAGCAGCTCTATCAg > 1:807224/1‑71 (MQ=255)
cgcgGGATACACCAACGTTCATGAGTTAATTCCGTGGCGCACGCTGTCGGgacgc < 1:281607/55‑2 (MQ=255)
cGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCaa < 1:2240643/61‑1 (MQ=255)
cGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAgg < 1:2041313/71‑1 (MQ=255)
cGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGAt > 1:1650743/1‑70 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt < 1:2732990/63‑1 (MQ=255)
ggTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTAt < 1:3104310/63‑1 (MQ=255)
gTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGctc < 1:2077042/41‑1 (MQ=255)
ttACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAc > 1:1316801/1‑70 (MQ=255)
|
GCAAAATTATCTCCAGCCCGACCTGGTCTGGTCTGGAAGATGAACACGTTTCTTACAACGCCGGTTACACCAACGTTCACGAGCTGATCCCATGGCGTACGCTCTCTGGTCGTCAGCAACTGTATCAGGATCAC > minE/834556‑834689
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
