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 |
|
A23 F10 I1 R1
|
17 |
30.2 |
1100966 |
93.3% |
1027201 |
143.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913_3_pae_tpiA |
2,795,396 |
C→A |
Q382K (CAG→AAG) |
gabP → |
gamma‑aminobutyrate transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913_3_pae_tpiA | 2,795,396 | 0 | C | A | 96.7%
| 92.7
/ NA
| 30 | Q382K (CAG→AAG) | gabP | gamma‑aminobutyrate transporter |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (13/16); total (14/16) |
| Fisher's exact test for biased strand distribution p-value = 4.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGTTGGTAGTGATGCTATTCCGTCCGGCGCAACAGTTA > NC_000913_3_pae_tpiA/2795268‑2795539
|
tACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGCTAAACCAGTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGCTGCGGATTCGCAAAGtt > 2:94045/1‑149 (MQ=255)
tctcCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTCCGCGCCTGCGAAGGTATTTAAATTTCTGATCGGCAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGCTTCAAAGTTTCGGAGGCGCAAAATTCTg > 2:81411/1‑149 (MQ=255)
tctcCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTg > 1:156403/1‑149 (MQ=255)
tcCACCGGCGAGGCATTCTTAACGGTGGTGGGAAACTATTACGGGCCTACGAAGGTGTTTAAATATCTGAACTCCAGCTCCGGCGCTATCGCCCTCCTGGTTTATATAGTCATGGCGTGTTGAAAGTTTCGGTAGCTCAAAACTCTGCg > 2:75038/1‑149 (MQ=255)
gcgcGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAgaa < 1:274465/149‑1 (MQ=255)
aCGGTGGGGGTGAACTATTCCGCGCCTGCGAATGGATTCAAATTTCAGATCGACAGCTCCGGCGCTAGCGCCCGGCTGGGTTAGTTAGTCATCGCCGTTTCAAAGGTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAAGTCg < 2:181189/149‑1 (MQ=255)
cGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGc < 2:156403/149‑1 (MQ=255)
cGGTGGTGGTGAACTATTACGCGCCTGCGAAACTATTTGTGGTCTTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGc < 1:377441/149‑1 (MQ=255)
aCTATTACGCGCCTTCGAAGGGATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTgg < 2:126138/149‑1 (MQ=255)
cTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGc < 1:494946/149‑1 (MQ=255)
cttGCGAAGGCATGTAAATGTTTCATCGATGGCGCCGGTGCTTCCGCCCTGCTTGTTTATTTAGTCATCGCCGTTTCAAATTTGCCGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTg < 2:2193/147‑1 (MQ=255)
tGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGc < 2:546866/137‑1 (MQ=255)
tGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGc > 1:546866/1‑137 (MQ=255)
gAAGGTATTTATATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTCCGCCTGTTGCGCTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCa < 1:128393/149‑1 (MQ=255)
gAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTACTGGTTTATTTAGTCATCGCCGATTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGACGGAAACGAAATGCACTTCCCCAAGTGCCTATATCCGTGGCtac > 2:433025/1‑147 (MQ=255)
aGGTATTTAAATCTCTGATTGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGCCacaca < 2:421852/149‑2 (MQ=255)
tcaaTTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTCAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAg < 1:205728/147‑1 (MQ=255)
tttCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGCTGCGCAAAATTCTGAGAGCAGAAGGAAGCGAAATTCCGTTGCGAATGTGGCTTTATCCGCGGCTCACCTGGCTAGTCAt > 2:128943/1‑149 (MQ=255)
tttCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAgaag < 1:504854/94‑1 (MQ=255)
tttCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAgaag > 2:504854/1‑94 (MQ=255)
tttCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCAt > 2:143866/1‑149 (MQ=255)
aTCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCTTTGCTTAGCTGGCGAGTAATTTGCtt > 1:191544/1‑149 (MQ=255)
ggCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTtgt < 1:292641/149‑1 (MQ=255)
ggCGCTATCGCCCTGCTGGTTTATTTAGTCAACGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTtgt < 1:61626/149‑1 (MQ=255)
tATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCCCCTGCGAATGGAGCAAAACGCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGTTgg < 1:268982/149‑1 (MQ=255)
tgctgGTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTGATTACCTTTGTGTTGGTAGTGATg > 1:364422/1‑149 (MQ=255)
gTTTATTTAGTCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGTTGGTAGTGATGCTAtt > 1:452877/1‑149 (MQ=255)
taGGCATCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGTTGGTAGTGATGCTATtccgtccg < 1:471928/149‑1 (MQ=255)
tCGCCGTTTCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGTTGGTAGTGATGCTATTCCGTCCGGCGCaa > 1:355392/1‑149 (MQ=255)
tttCAAAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGTTGGTAGTGATGCTATTCCGTCCGGCGCAACAGTTa > 2:66657/1‑149 (MQ=255)
|
TACTCTCCACCGGCGCGGCATTCTTAACGGTGGTGGTGAACTATTACGCGCCTGCGAAGGTATTTAAATTTCTGATCGACAGCTCCGGCGCTATCGCCCTGCTGGTTTATTTAGTCATCGCCGTTTCACAGTTGCGGATGCGCAAAATTCTGCGAGCAGAAGGAAGCGAAATTCGCTTGCGAATGTGGCTTTATCCGTGGCTCACCTGGCTAGTCATCGGCTTTATTACCTTTGTGTTGGTAGTGATGCTATTCCGTCCGGCGCAACAGTTA > NC_000913_3_pae_tpiA/2795268‑2795539
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
