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 |
1,502,952 |
C→A |
69.6% |
intergenic (‑325/‑595) |
lrhA ← / → yfbQ |
DNA‑binding transcriptional repressor/predicted aminotransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,502,952 | 0 | C | A | 69.6%
| 68.6
/ 46.3
| 69 | intergenic (‑325/‑595) | lrhA/yfbQ | DNA‑binding transcriptional repressor/predicted aminotransferase |
| Reads supporting (aligned to +/- strand): ref base C (5/16); new base A (15/33); total (20/49) |
| Fisher's exact test for biased strand distribution p-value = 5.80e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGTAAATGTGAGTCCTTGTTCCACTCTCGTGCAGCATCGCTGGTCATACGCGAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCATTTTACCCCAAAAA > minE/1502891‑1503019
|
tgtaaatgtGAGTCCTTGTTCCACTCTCGTGCAGCATCGCTGGTCATACGCGAACACGTACCAACAGc < 1:105159/68‑1 (MQ=255)
tgtaaatgtGAGTCCTTGTTCCACTCTCGTGCAGCATCGCTGGTCATACGCGAACACGTACCAACAGc < 1:2637792/68‑1 (MQ=255)
tgtaaatgtGAGTCCTTGTTCCACTCTCGTGCAGCATCGCTGGTCATACGCGAACACGTACCAACAGc < 1:1778542/68‑1 (MQ=255)
aatgtGAGTCCTTGTTCCACTCTCGTGCAGCATCGCTGGTCATACGCGAACACGTACCAACAGCAATg < 1:2185477/68‑1 (MQ=255)
aatgtGAGTCCTTGTTCCACTCTCGTGCAGCATCGCTGGTCATACGCGAACACGTACCAACAGCAATg < 1:1336625/68‑1 (MQ=255)
attCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:3285466/67‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:999851/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:2128752/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:2297487/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:233715/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:2571485/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:2685445/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:1752861/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:2824856/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:1623513/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:773265/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:1121190/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:1530624/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:2895999/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:1124778/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:1496837/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:690439/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:1359896/69‑1 (MQ=255)
aGTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:508096/69‑1 (MQ=255)
gTCCTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:2842402/68‑1 (MQ=255)
tCCTTGTTCCACTCTCGTGCAGCATCGCTGGTCATACGCGAACACGTACCAACAGCAATGGTGAggcgg > 1:2881782/1‑69 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAg > 1:1674584/1‑53 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:2607486/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:2609234/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:2437623/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:291894/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:2710972/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:2856106/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:2243848/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:1118410/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:1147388/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:2062396/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:2218484/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:1582428/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:1873550/1‑68 (MQ=255)
cTTGTTCCACTCTCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAggcggc > 1:1718598/1‑68 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:2634398/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:2959506/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:1475228/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:1621562/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:321172/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:1804243/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:1853669/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:134154/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:600284/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:608009/68‑1 (MQ=255)
ctctCGTACAGCATCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:2259692/68‑1 (MQ=255)
gTGCAGCATCGCTGGTCATACGCGAACACGTACCAACCGCAATg < 1:441313/44‑1 (MQ=255)
gcagcaTCGCTGGTCATACGCGAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGa < 1:1530161/66‑1 (MQ=255)
gcagcaTCGCTGGTCATACGCGAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGa < 1:1090424/66‑1 (MQ=255)
gcagcaTCGCTGGTCATACGCGAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGa < 1:16582/66‑1 (MQ=255)
tCGCTGGTCATACGCGAACACGTACAAACAGCAATGGTGAGGCGGCATCAAGAGc < 1:2165429/55‑1 (MQ=255)
ggTCATACGCGAACACGTACAAACAGCAATGGTGAggc < 1:1980600/38‑1 (MQ=255)
aCGCGAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCa < 1:650014/68‑1 (MQ=255)
cgcgAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATcc > 1:2033820/1‑51 (MQ=255)
cgcgAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCAt > 1:3051981/1‑68 (MQ=255)
cgcgAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCAt > 1:3124887/1‑68 (MQ=255)
cgcgAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCAt > 1:3374537/1‑68 (MQ=255)
aaCACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCATTTTAc < 1:2305548/69‑1 (MQ=255)
aaCACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCATTTCAc < 1:1464508/69‑1 (MQ=255)
cacGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCATTTTAc < 1:1951858/67‑1 (MQ=255)
aCCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCATTTTACCCCaaaa < 1:210314/69‑1 (MQ=255)
aCCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCATTTTACCCCaaaa < 1:932603/69‑1 (MQ=255)
aCCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCATTTTACCACaaaa < 1:1756776/69‑1 (MQ=255)
ccAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCATTTTACCCCaaaaa > 1:3112837/1‑69 (MQ=255)
|
TGTAAATGTGAGTCCTTGTTCCACTCTCGTGCAGCATCGCTGGTCATACGCGAACACGTACCAACAGCAATGGTGAGGCGGCATCAAGAGCAGGGATCCGTCATTTATCCGAGCATTTTACCCCAAAAA > minE/1502891‑1503019
|
| 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
