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 |
|
A4 F1 I2 R1
|
780 |
68.3 |
3343050 |
93.5% |
3125751 |
102.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,842,910 |
G→A |
A180A (GCG→GCA) |
gdhA → |
glutamate dehydrogenase, NADP‑specific |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,842,910 | 0 | G | A | 95.0%
| 114.2
/ ‑1.5
| 40 | A180A (GCG→GCA) | gdhA | glutamate dehydrogenase, NADP‑specific |
| Reads supporting (aligned to +/- strand): ref base G (1/1); new base A (17/21); total (18/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.10e-01 |
AAGGAAAAAGCGAAGGTGAAGTGATGCGTTTTTGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCGGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTCGCCCGGAAGCTACCGGCTACGGTCTGGTTTATTTCACAGAAGCAATGCT > NC_000913/1842777‑1843038
|
aaGGAAAAAGCGAAGGTGAAGTGATGCGTTTTTGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGgat < 2:1010998/139‑1 (MQ=255)
cGAAGGTGAAGTGATGCGTTTTTGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAg < 2:760517/139‑1 (MQ=255)
aGGTGAAGTGATGCGTTTTTGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGctc < 1:1508698/139‑1 (MQ=255)
aGGTGAAGTGATGCGTTTTTGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGctc < 2:55940/139‑1 (MQ=255)
aGGTGAAGTGATGCGTTTTTGCCAGGCGCTGAAGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGctc < 1:512558/139‑1 (MQ=255)
aTGCGTTTTTGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATa > 2:1153684/1‑139 (MQ=255)
tttttGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGcc < 2:732102/139‑1 (MQ=255)
tttttGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGcc > 1:1595426/1‑139 (MQ=255)
tGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCg < 2:1595426/139‑1 (MQ=255)
gatgaCTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAg > 2:971196/1‑106 (MQ=255)
gatgaCTGAACTGTATCGCCACCTGGGCGCGGATACAGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAGAAAg < 1:971196/106‑1 (MQ=255)
tGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGctc < 2:878580/98‑1 (MQ=255)
tGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGctc > 1:878580/1‑98 (MQ=255)
tCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGc < 2:1596391/92‑1 (MQ=255)
tCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGc > 1:1596391/1‑92 (MQ=255)
aCCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTggcgg < 2:641455/139‑1 (MQ=255)
aCCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTggcgg < 1:1153684/139‑1 (MQ=255)
tGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGaaaa < 1:141374/81‑1 (MQ=255)
tGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGaaaa > 2:141374/1‑81 (MQ=255)
tGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAg < 1:1566851/83‑1 (MQ=255)
tGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAg > 2:1566851/1‑83 (MQ=255)
cgcgGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCtt > 1:1287605/1‑139 (MQ=255)
gATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTc > 2:1230597/1‑139 (MQ=255)
tCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGga > 2:587464/1‑53 (MQ=255)
tCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGga < 1:587464/53‑1 (MQ=255)
atCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTggcgg > 1:1206122/1‑104 (MQ=255)
atCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTggcgg < 2:1206122/104‑1 (MQ=255)
gggTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTCGCCCGGAAGCTACCGGCTACGGTCTGGt < 2:1287605/139‑1 (MQ=255)
ggTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTCGCCCGGa > 2:1453319/1‑117 (MQ=255)
ggTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTCGCCCGGa < 1:1453319/117‑1 (MQ=255)
gTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGt > 1:504807/1‑78 (MQ=255)
gTTGGTGGTCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGt < 2:504807/78‑1 (MQ=255)
gtggtCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCAtt > 1:1099175/1‑88 (MQ=255)
gtggtCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCAtt < 2:1099175/88‑1 (MQ=255)
tggtCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTCGCCCGGAAGCTACCGGCTACGGTCTGGTTTAt > 2:212720/1‑136 (MQ=255)
tggtCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTCGCCCGGAAGCTACCGGCTACGGTCTGGTTTAt < 1:212720/136‑1 (MQ=255)
tggtCGTGAAGTCGGCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTCGCCCGGAAGCTACCGGCTACGGTCTGGTTTATTTc > 2:41753/1‑139 (MQ=255)
gCTTTATGGCAGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTCGCCCGGAAGCTACCGGCTACGGTCTGGTTTATTTCACAGAAGCAATGCt > 2:265352/1‑139 (MQ=255)
aTGGCGGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTc < 2:618311/48‑1 (MQ=255)
aTGGCGGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTc > 1:618311/1‑48 (MQ=255)
|
AAGGAAAAAGCGAAGGTGAAGTGATGCGTTTTTGCCAGGCGCTGATGACTGAACTGTATCGCCACCTGGGCGCGGATACCGACGTTCCGGCAGGTGATATCGGGGTTGGTGGTCGTGAAGTCGGCTTTATGGCGGGGATGATGAAAAAGCTCTCCAACAATACCGCCTGCGTCTTCACCGGTAAGGGCCTTTCATTTGGCGGCAGTCTTATTCGCCCGGAAGCTACCGGCTACGGTCTGGTTTATTTCACAGAAGCAATGCT > NC_000913/1842777‑1843038
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
