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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,639,265 |
A→C |
41.8% |
intergenic (+35/+75) |
ypfN → / ← ypfH |
hypothetical protein/predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,639,265 | 0 | A | C | 41.8%
| 15.5
/ 103.7
| 83 | intergenic (+35/+75) | ypfN/ypfH | hypothetical protein/predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base A (16/32); new base C (13/21); total (30/53) |
| Fisher's exact test for biased strand distribution p-value = 8.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGACTGGCCGAAAAAGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTAATCTG > minE/1639197‑1639335
|
cgacTGGCCGAAAAAGGATCAACCGAAGAAGTAAGCTGATTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:1610808/1‑70 (MQ=255)
cgacTGGCCGAAAAAGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAAc < 1:5109494/71‑1 (MQ=255)
gacTGGCCGAAAAAGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAAcg > 1:1341978/1‑71 (MQ=255)
gacTGGCCGAAAAAGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAAcg > 1:162503/1‑71 (MQ=255)
cTGGCCGAAAAAGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAAcgcc > 1:5240235/1‑71 (MQ=255)
cTGGCCGAAAAAGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAAcgcc > 1:2138618/1‑71 (MQ=255)
ccGAAAAAGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCAt < 1:2223954/71‑1 (MQ=255)
gAAAAAGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATcc > 1:4687786/1‑71 (MQ=255)
aaaaGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:3273196/1‑59 (MQ=255)
aaaaGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:3526198/1‑59 (MQ=255)
aaaGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGc < 1:4801720/71‑1 (MQ=255)
aaGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGc > 1:5086789/1‑70 (MQ=255)
aGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:2707513/1‑56 (MQ=255)
aGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:3242584/1‑56 (MQ=255)
aGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:1604122/1‑56 (MQ=255)
aGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCaa < 1:1590836/71‑1 (MQ=255)
aGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCaa < 1:1008489/71‑1 (MQ=255)
gATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGc < 1:5488717/67‑1 (MQ=255)
aTCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATgg > 1:4104017/1‑71 (MQ=255)
aaCCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:3936121/1‑50 (MQ=255)
aaCCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:445781/1‑50 (MQ=255)
aaCCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:4401746/1‑50 (MQ=255)
aaCCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:1166444/1‑50 (MQ=255)
aaCCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTg < 1:1121924/70‑1 (MQ=255)
ccGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAAc < 1:3442558/71‑1 (MQ=255)
ccGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAAc > 1:4502322/1‑71 (MQ=255)
ccGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAAc < 1:3704294/71‑1 (MQ=255)
cGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAAc < 1:773098/70‑1 (MQ=255)
gaagaaGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGa > 1:511664/1‑71 (MQ=255)
gaagTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGc < 1:2470358/71‑1 (MQ=255)
gTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTaa > 1:431434/1‑40 (MQ=255)
gTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCa < 1:3339986/47‑1 (MQ=255)
gTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCa < 1:1163753/47‑1 (MQ=255)
gTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCt > 1:841144/1‑70 (MQ=255)
tAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGAGTTAAcg < 1:2334225/41‑1 (MQ=255)
aaGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGAt > 1:4334209/1‑71 (MQ=255)
gCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGc < 1:2063037/71‑1 (MQ=255)
tGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGa > 1:217416/1‑71 (MQ=255)
aGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGc < 1:2380901/45‑1 (MQ=255)
aGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGa < 1:1472496/69‑1 (MQ=255)
aGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACg < 1:176796/71‑1 (MQ=255)
aGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACg < 1:170100/71‑1 (MQ=255)
gTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGc < 1:754492/71‑1 (MQ=255)
tGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCt < 1:3028274/71‑1 (MQ=255)
attcgtaGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttat > 1:2786583‑M1/4‑46 (MQ=255)
attcgtaGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttat < 1:4143815‑M1/68‑26 (MQ=255)
attcgtaGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttat < 1:2626015‑M1/68‑26 (MQ=255)
attcgtaGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttat > 1:1694301‑M1/4‑46 (MQ=255)
actcgtaGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttat < 1:4576253‑M1/68‑26 (MQ=255)
actcgtaGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgcta > 1:800526‑M1/4‑46 (MQ=255)
actcgtaGGCCGGATAAGGCGTCCACGCCGCATCCGGCAGTGGTGGcaaatgcctgatgcgctacgcttat < 1:3539727‑M1/68‑26 (MQ=255)
actcgtaGGCCGGATAAGGCGTCCACGCCGCATCCGGCAGTGGTGGcaaatgcctgatgcgctacgcttat < 1:3142512‑M1/68‑26 (MQ=255)
ctcgtAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttat > 1:766880‑M1/3‑45 (MQ=255)
ctcgtAGGCCGGATAAGGCGTCCACGCCGCATCCGGCAGTGGTGGcaaatgcctgatgcgctacgcttatc < 1:3266569‑M1/69‑27 (MQ=255)
tcgTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatg > 1:3737166‑M1/2‑44 (MQ=255)
tcgTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaa > 1:417648‑M1/2‑44 (MQ=255)
cGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgctta > 1:3560763‑M1/1‑43 (MQ=255)
cGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAca < 1:2398275‑M1/45‑3 (MQ=255)
gTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatcagg > 1:3620561‑M1/1‑42 (MQ=255)
gTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatcag < 1:4664754‑M1/70‑29 (MQ=255)
gTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatcag < 1:2527874‑M1/70‑29 (MQ=255)
gTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatca < 1:2292632‑M1/69‑28 (MQ=255)
gTAGGCCGGATAAGGCGTCCACGCCGCATCCGGCAGTGGTGGcaaatgcctgatgcgctacgcttatca < 1:2061615‑M1/69‑28 (MQ=255)
aGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTa > 1:3526884/1‑71 (MQ=255)
aGGCCGGATAAGGCGTCCACGCCGCATCCGGCAGTGGTGGcaaatgcctgatgcgctacgcttat < 1:2228200‑M1/65‑26 (MQ=255)
ggCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTAt < 1:1179540/71‑1 (MQ=255)
ggCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTAt < 1:3121612/71‑1 (MQ=255)
gCCGGATAAGGCGTCCACGCCGCATCCGGCAGTGGTGGcaaatgcctgatgcgctacgcttatcaggccta < 1:2665404‑M1/71‑34 (MQ=255)
cGGATAAGGCGTCCACGCCGCATCCGGCAGTGGTGGcaaatgcctgatgcgctacgcttatcaggccta > 1:3745869‑M1/1‑36 (MQ=255)
ggATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatcaggccta > 1:1051323‑M1/1‑35 (MQ=255)
ggATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatca > 1:2540654‑M1/1‑35 (MQ=255)
ggATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatca > 1:1768925‑M1/1‑35 (MQ=255)
gATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatcaggcctacaga < 1:415688‑M1/71‑38 (MQ=255)
gATAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatcaggcctacaga < 1:3744905‑M1/71‑38 (MQ=255)
gATAAGGCGTTCACGCCGCATCCGGCAATGGTGAca < 1:860661‑M1/36‑3 (MQ=255)
gATAAGGCGTTCACGCCGCATCCGGCAATGGTGAca < 1:2947988‑M1/36‑3 (MQ=255)
gATAAGGCGTTAACGCCGCATCCGGCAATGGTGAAc < 1:2174536/36‑1 (MQ=255)
aTAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcct < 1:1256639‑M1/42‑10 (MQ=255)
aTAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcct < 1:1726267‑M1/42‑10 (MQ=255)
aTAAGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcct < 1:3769719‑M1/42‑10 (MQ=255)
aTAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGcc < 1:4354912/71‑1 (MQ=255)
aTAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGcc < 1:1902689/71‑1 (MQ=255)
aTAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGcc < 1:4210460/71‑1 (MQ=255)
tAAGGCGTTTACGCCGCATCCGGCAACAGTG‑CCGACTGCCTGATGCGACGCTCGCGCGTCTTATCAGGccg > 1:718344/1‑70 (MQ=1)
aaGGCGTTCACGCCGCATCCGGCAATGGTGAcaaatgcctga > 1:60934‑M1/1‑31 (MQ=255)
gCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTa < 1:4425751/71‑1 (MQ=255)
cGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTaa > 1:5151097/1‑71 (MQ=255)
gTTCACGCCGCATCCGGCAATGGTGAcaaatgcctgatgcgctacgcttatcaggcctacaga < 1:651551‑M1/63‑38 (MQ=255)
gTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCt < 1:4731550/35‑1 (MQ=255)
ttAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTAt < 1:2366829/57‑1 (MQ=255)
ttAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGc < 1:3638156/62‑1 (MQ=255)
ttAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTAATc > 1:3411478/1‑71 (MQ=255)
ttAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTAATc > 1:1261933/1‑71 (MQ=255)
tAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGc < 1:841510/61‑1 (MQ=255)
aaCGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCa > 1:2613281/1‑57 (MQ=255)
aaCGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTAATCTg > 1:4503588/1‑71 (MQ=255)
aaCGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTAATCTg > 1:3506308/1‑71 (MQ=255)
aaCGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTAATCTg > 1:1180973/1‑71 (MQ=255)
aaCGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTAATCTg > 1:931845/1‑71 (MQ=255)
|
CGACTGGCCGAAAAAGGATCAACCGAAGAAGTAAGCTGAGTGCTCAACCGTAGGCCGGATAAGGCGTTAACGCCGCATCCGGCAATGGTGAACGA‑TGCCTGATGCGACGCTCACGCGTCTTATCAGGCCAGGTAATCTG > minE/1639197‑1639335
|
| 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
