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 |
1,677,486 |
T→C |
54.0% |
N22S (AAT→AGT) |
ndk ← |
multifunctional nucleoside diphosphate kinase, apyrimidinic endonuclease, and 3'‑phosphodiesterase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,677,486 | 0 | T | C | 54.0%
| 11.1
/ 61.7
| 76 | N22S (AAT→AGT) | ndk | multifunctional nucleoside diphosphate kinase, apyrimidinic endonuclease, and 3'‑phosphodiesterase |
| Reads supporting (aligned to +/- strand): ref base T (28/7); new base C (19/22); total (47/29) |
| Fisher's exact test for biased strand distribution p-value = 4.15e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.14e-01 |
CAACGGTCAGGTGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTCAATAGCCATTTTT > minE/1677418‑1677554
|
cAACGGTCAGGTGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGatat > 1:3367315/1‑69 (MQ=255)
cAACGGTCAGGTGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGatat > 1:3118515/1‑69 (MQ=255)
aGGTGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATg < 1:2188969/69‑1 (MQ=255)
aGGTGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATg < 1:802414/69‑1 (MQ=255)
gTGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGAc > 1:2933903/1‑69 (MQ=255)
gTGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGAc > 1:3430328/1‑69 (MQ=255)
tGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACg > 1:2708920/1‑69 (MQ=255)
tGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACg > 1:125211/1‑69 (MQ=255)
tGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACg > 1:2273960/1‑69 (MQ=255)
tGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACg > 1:1328800/1‑69 (MQ=255)
tGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACg > 1:3343596/1‑69 (MQ=255)
tGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACg > 1:1402522/1‑69 (MQ=255)
tGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACg > 1:1487889/1‑69 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGCCGt > 1:1507810/1‑69 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACg > 1:2543781/1‑68 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGt < 1:188217/69‑1 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGt > 1:1960778/1‑69 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGt > 1:2403358/1‑69 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGt > 1:524424/1‑69 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGt > 1:1017816/1‑69 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGt > 1:2535205/1‑69 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGt > 1:311800/1‑69 (MQ=255)
gcagcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGt > 1:1189148/1‑69 (MQ=255)
gcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGtttt > 1:254317/1‑69 (MQ=255)
gcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGtttt > 1:1809595/1‑69 (MQ=255)
gcaTTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGtttt > 1:420252/1‑69 (MQ=255)
tttgTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:2681815/4‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGc > 1:1154584/1‑68 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:314740/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:2486354/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:293515/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:2113284/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:3195797/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:2921944/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:2914142/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:1436286/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:1577731/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:2785385/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:2705591/1‑69 (MQ=255)
ttGGTGCCGACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCt > 1:2106367/1‑69 (MQ=255)
ttGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGTTTTTTGc > 1:1246381/1‑68 (MQ=255)
ccAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGTTTTTTGCTACcgcg > 1:2289291/1‑69 (MQ=255)
ccAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGTTTTTTGCTACcgcg > 1:2701101/1‑69 (MQ=255)
ccAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGTTTTTTGCTACcgcg > 1:2554825/1‑69 (MQ=255)
caaTTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCg > 1:1622639/1‑69 (MQ=255)
caaTTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCg > 1:3208004/1‑69 (MQ=255)
caaTTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCg > 1:553566/1‑69 (MQ=255)
caaTTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCg > 1:131195/1‑69 (MQ=255)
caaTTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCg > 1:1307157/1‑69 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:3217147/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:3032204/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:3151051/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:2459526/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:36367/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:417016/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:423649/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:809393/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:936384/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:2657581/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:1132268/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:1688215/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:1893267/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:1953831/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:1974717/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:1987740/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:2026403/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:210093/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:2447676/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:2744907/68‑1 (MQ=255)
aCCCTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCCCGTTCGGTTtgatg < 1:2575595/68‑1 (MQ=255)
cccTGCAGCTTCAAAGCGCGCAAAGATACTACCAATCACGTTTTTTGCTACCGCGTTCGGTTtgatg < 1:1657031/67‑1 (MQ=255)
ccTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGTTTTTTGCTACCGCGTTCGGTTTgatgat > 1:2538209/1‑68 (MQ=255)
gCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGTTTTTTGCTCCCGCGtt > 1:1372964/1‑53 (MQ=255)
cAGCTTCAAAGCGCGCAAAGATATTACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGa > 1:15723/1‑67 (MQ=255)
gcgcgcAAAGATATTACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTc < 1:2143788/69‑1 (MQ=255)
gcgcgcAAAGATATTACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTc < 1:2284113/69‑1 (MQ=255)
gcgcgcAAAGATATTACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTc < 1:901467/69‑1 (MQ=255)
cgcgcAAAGATATTACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTc < 1:3348606/68‑1 (MQ=255)
ttACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTCAATAGCCAttttt < 1:1787871/69‑1 (MQ=255)
ttACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTCAATAGCCAttttt < 1:1735547/69‑1 (MQ=255)
ttACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTCAATAGCCAttttt > 1:1285311/1‑69 (MQ=255)
ttACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTCAATAGCCAttttt < 1:1094813/69‑1 (MQ=255)
|
CAACGGTCAGGTGCAGCATTTTGGTGCCAACAATTTTGAACCCTGCAGCTTCAAAGCGCGCAAAGATATTACCAATGACGTTTTTTGCTACCGCGTTCGGTTTGATGATGGAAAAAGTACGTTCAATAGCCATTTTT > minE/1677418‑1677554
|
| 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
