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 |
1,933,210 |
T→G |
22.1% |
T411T (ACA→ACC) |
lysS ← |
lysine tRNA synthetase, constitutive |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,933,210 | 0 | T | G | 22.1%
| 112.0
/ 46.3
| 77 | T411T (ACA→ACC) | lysS | lysine tRNA synthetase, constitutive |
| Reads supporting (aligned to +/- strand): ref base T (22/38); new base G (6/11); total (28/49) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.93e-01 |
TTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGA > minE/1933141‑1933277
|
ttCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt > 1:1161900/1‑70 (MQ=255)
tCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt > 1:3499349/1‑71 (MQ=255)
tCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt > 1:3914162/1‑71 (MQ=255)
ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgt > 1:2034309/1‑70 (MQ=255)
ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtg < 1:1450719/69‑1 (MQ=255)
ccGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtg < 1:1455201/69‑1 (MQ=255)
cgTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGAtt < 1:2907455/71‑1 (MQ=255)
aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTcc < 1:2887362/70‑1 (MQ=255)
aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTcc < 1:1689755/70‑1 (MQ=255)
aTTCAGCTCGCTAAAGCCGTTACCGATTTCACGACAACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCg < 1:703898/71‑1 (MQ=255)
ttCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt < 1:191498/60‑1 (MQ=255)
tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCggg > 1:2316328/1‑71 (MQ=255)
tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCggg > 1:2238909/1‑71 (MQ=255)
tCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCgg > 1:2220784/1‑70 (MQ=255)
cAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt > 1:3167449/1‑71 (MQ=255)
aaGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt > 1:3550012/2‑71 (MQ=255)
aGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGt < 1:3040635/70‑1 (MQ=255)
gCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTa < 1:1854008/71‑1 (MQ=255)
gCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTa < 1:2474462/71‑1 (MQ=255)
ttCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGtt < 1:3888445/68‑1 (MQ=255)
cTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg < 1:2149629/58‑1 (MQ=255)
cTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg < 1:2049958/58‑1 (MQ=255)
tCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAc > 1:3572752/1‑71 (MQ=255)
tCGCTAAAACCATTACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTaa > 1:488429/1‑70 (MQ=255)
cGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGAt > 1:229169/1‑58 (MQ=255)
cGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcg > 1:1839803/1‑71 (MQ=255)
gCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcg < 1:313528/70‑1 (MQ=255)
cTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtc < 1:2897852/71‑1 (MQ=255)
tAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtcg > 1:1676638/1‑71 (MQ=255)
aaaGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCt > 1:199218/1‑49 (MQ=255)
aaGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcgtcgt < 1:770120/70‑1 (MQ=255)
ccattACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacg > 1:3628617/4‑71 (MQ=255)
ccGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTacg < 1:3698967/71‑1 (MQ=255)
attACCGATTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTacgg > 1:3154713/2‑69 (MQ=255)
aCCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGa > 1:2209484/1‑44 (MQ=255)
aCCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGa > 1:1841800/1‑44 (MQ=255)
aCCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTacgac > 1:3619747/1‑68 (MQ=255)
aCCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGAcgc < 1:368352/70‑1 (MQ=255)
cGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAAcg < 1:2706932/56‑1 (MQ=255)
aTTTCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAg < 1:670838/71‑1 (MQ=255)
aTTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAg > 1:3506037/1‑71 (MQ=255)
aTTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAg > 1:788704/1‑71 (MQ=255)
tttCACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGc < 1:3943499/71‑1 (MQ=255)
tttCACGACCACCAATGAAGAACTCAAAGCGGTCtgtg < 1:2355954/38‑1 (MQ=255)
ttCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACgcgc > 1:3070692/1‑66 (MQ=255)
tCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg < 1:1834786/70‑1 (MQ=255)
tCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg < 1:2078351/70‑1 (MQ=255)
cACGACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCgg < 1:1340749/70‑1 (MQ=255)
aCGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTa > 1:2210341/1‑55 (MQ=255)
aCGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGga < 1:2053879/70‑1 (MQ=255)
gACCACCGATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGggga > 1:3336015/1‑70 (MQ=255)
gACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg < 1:1943883/66‑1 (MQ=255)
gACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGgaga < 1:1762637/70‑1 (MQ=255)
gACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGgaga < 1:2000826/70‑1 (MQ=255)
gACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGgag > 1:2691720/1‑69 (MQ=255)
accaccAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGaaa < 1:489697/71‑1 (MQ=255)
ccaccgATGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTaa > 1:1583561/1‑43 (MQ=25)
ccaccaATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac < 1:1077931/52‑1 (MQ=255)
caccaATGAAGAACTCAAAGCGGTCTGTGATTTCCg < 1:3872940/36‑1 (MQ=255)
caccaATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAAc < 1:2885904/70‑1 (MQ=255)
caccaATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACt < 1:986997/71‑1 (MQ=255)
cgaTGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGgggac < 1:2261431/63‑2 (MQ=255)
caATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCt < 1:1541563/71‑1 (MQ=255)
gaTGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTg < 1:990147/70‑1 (MQ=255)
gaTGAAGAATTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTg < 1:2143574/70‑1 (MQ=255)
tGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac < 1:119065/45‑1 (MQ=255)
tGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTac < 1:3267990/45‑1 (MQ=255)
gaagaaCTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCg > 1:767057/1‑71 (MQ=255)
aagaaCTCAAAGCGGTCTGTGATTTCCGGGTTAAc > 1:2142318/1‑35 (MQ=255)
gaaTTCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGa > 1:3235564/1‑70 (MQ=255)
attCAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGatat < 1:1320466/69‑1 (MQ=255)
cTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGAcgc < 1:3357586/43‑1 (MQ=255)
cTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATAtt < 1:3411527/71‑1 (MQ=255)
cAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCgg < 1:722270/64‑1 (MQ=255)
cAAAACGGTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATAtt < 1:704346/69‑1 (MQ=255)
aaaGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTc < 1:1405310/69‑1 (MQ=255)
aaGCGGTCTGTGATTTCCGGGTTAACGTCGTTacga > 1:3196846/1‑36 (MQ=255)
aGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCgg > 1:3497264/1‑46 (MQ=255)
aGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCgg > 1:809687/1‑46 (MQ=255)
gCGGTCTGTGATTTCCGGGTTAACGGCGTTACGACGCGCCAGCGgaga < 1:2889304/48‑1 (MQ=255)
cggtcggtGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGata > 1:245831/1‑62 (MQ=255)
cGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGga < 1:3150566/45‑1 (MQ=255)
ggTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATg < 1:147228/71‑1 (MQ=255)
ggTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGc < 1:2229912/41‑1 (MQ=19)
gTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGa < 1:1878731/71‑1 (MQ=255)
gTCGGTGATTTCCGGGTTAACATCATTACGGCGTGCCAGCGGGGACACTTCTGCCGGATATTCCGTAAtaa < 1:3803418/71‑3 (MQ=255)
tCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg < 1:1183831/40‑1 (MQ=255)
tCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCg < 1:2258177/40‑1 (MQ=255)
tCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACtt < 1:2256603/49‑1 (MQ=255)
tgtgATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGa < 1:1264421/55‑1 (MQ=255)
|
TTCCGCGTCATTCAGCTCGCTAAAGCCGTTACCGATTTCACGACCACCAATGAAGAACTCAAAGCGGTCTGTGATTTCCGGGTTAACGTCGTTACGACGCGCCAGCGGAGAAACTTCTGCCGGATATTCAGTAATGA > minE/1933141‑1933277
|
| 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
