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 |
2,004,964 |
G→A |
26.7% |
T262T (ACC→ACT) |
hybC ← |
hydrogenase 2, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,004,964 | 0 | G | A | 26.7%
| 75.5
/ 23.8
| 67 | T262T (ACC→ACT) | hybC | hydrogenase 2, large subunit |
| Reads supporting (aligned to +/- strand): ref base G (14/35); new base A (6/12); total (20/47) |
| Fisher's exact test for biased strand distribution p-value = 7.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.57e-01 |
GTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGTTTGTCGATGAAAGACTTGATGTA > minE/2004904‑2005026
|
gTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAAc < 1:1128247/69‑1 (MQ=255)
gTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAAc < 1:1099036/69‑1 (MQ=255)
gTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAAc < 1:1824446/69‑1 (MQ=255)
gTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAAc < 1:1809579/69‑1 (MQ=255)
gTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAAc < 1:1716324/69‑1 (MQ=255)
gTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAAc < 1:1620580/69‑1 (MQ=255)
gTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAAc < 1:14598/69‑1 (MQ=255)
gTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAAc < 1:576341/69‑1 (MQ=255)
gTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCAGGGTAGAACGCGGCAATAACTGCGGTATCAAc < 1:2995742/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:1446477/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:2805585/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:2647577/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:2845334/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:2493082/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:2981779/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:2013427/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:3297834/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:1769668/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:402036/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:3348679/69‑1 (MQ=255)
aGTTCACCGCACCTTTACCGCGCGTCAGCCATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCt < 1:1711127/69‑1 (MQ=255)
gTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCt > 1:1642217/1‑68 (MQ=255)
gTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCt > 1:18617/1‑68 (MQ=255)
tttACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTc > 1:522012/1‑69 (MQ=255)
tttACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTc > 1:3134356/1‑69 (MQ=255)
ttACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTca < 1:1943969/69‑1 (MQ=255)
ttACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTca < 1:2082039/69‑1 (MQ=255)
ttACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTc > 1:3040105/1‑68 (MQ=255)
ttACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTc > 1:3082179/1‑68 (MQ=255)
ttACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTc > 1:1537764/1‑68 (MQ=255)
ttACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTc > 1:2923365/1‑68 (MQ=255)
gcgTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTAAACaaa < 1:4214/69‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:2904076/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:2875406/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:2364995/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:684557/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:619481/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:606306/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:1465276/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa > 1:1784392/1‑42 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa > 1:2099435/1‑42 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:2092575/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:1196647/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa < 1:1940135/42‑1 (MQ=255)
tCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCaa > 1:1144006/1‑42 (MQ=255)
aGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTc > 1:1505399/1‑69 (MQ=255)
ccATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCTTGTAAACCTGCTCAACAAAGTCGCTCAg > 1:558746/1‑69 (MQ=255)
ccATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCTTGTAAACCTGCTCAACAAAGTCGCTCAg > 1:412944/1‑69 (MQ=255)
ccATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCTTGTAAACCTGCTCAACAAAGTCGCTCAg > 1:939371/1‑69 (MQ=255)
ccATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCTTGTAAACCTGCTCAACAAAGTCGCTCAg > 1:2857288/1‑69 (MQ=255)
ccATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCTTGTAAACCTGCTCAACAAAGTCGCTCAg > 1:279401/1‑69 (MQ=255)
ccATTCCGGGTAGAACGCAGCGATAACTGCAGTATCAACCTTGTAAACCTGCTCAACAAAGTCGCTAAg > 1:660698/1‑69 (MQ=255)
aTTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGtt > 1:1531582/1‑69 (MQ=255)
aTTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGtt > 1:2629886/1‑69 (MQ=255)
tAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTTCTCAACAAAGTCGCTCAGtt < 1:967186/61‑1 (MQ=255)
tAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGtt < 1:564773/61‑1 (MQ=255)
tAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGtt < 1:2730785/61‑1 (MQ=255)
tAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGtt < 1:1449322/61‑1 (MQ=255)
tAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGtt < 1:1868856/61‑1 (MQ=255)
tAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGtt < 1:1898696/61‑1 (MQ=255)
aGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGtt < 1:3397203/60‑1 (MQ=255)
aGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGtt < 1:2060273/60‑1 (MQ=255)
cgcgGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGTTTGTCGATGAAAGa < 1:183095/69‑1 (MQ=255)
aTAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGTTTGTCGATGAAAGACTTGATg < 1:2137606/69‑1 (MQ=255)
aaCTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGTTTGTCGATGAAAGACTTGATGTa < 1:1321820/69‑1 (MQ=255)
aaCTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGTTTGTCGATGAAAGACTTGATGTa < 1:1163595/69‑1 (MQ=255)
aaCTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGTTTGTCGATGAAAGACTTGATGTa < 1:623824/69‑1 (MQ=255)
|
GTAGTTCACCGCACCTTTACCGCGTGTCAGCCATTCCGGGTAGAACGCGGCAATAACTGCGGTATCAACCTTATAAACCTGCTCAACAAAGTCGCTCAGTTTGTCGATGAAAGACTTGATGTA > minE/2004904‑2005026
|
| 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
