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 |
|
A12 F28 I1 R1
|
176 |
31.5 |
1082462 |
98.8% |
1069472 |
138.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,065,717 |
G→A |
A306T (GCC→ACC) |
scpC → |
propionyl‑CoA:succinate CoA transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,065,717 | 0 | G | A | 96.7%
| 91.4
/ ‑4.7
| 30 | A306T (GCC→ACC) | scpC | propionyl‑CoA:succinate CoA transferase |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (16/13); total (16/14) |
| Fisher's exact test for biased strand distribution p-value = 4.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
ATAATGCGGTAATGGCGCGTCTGGGGGAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCGCCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAATAACCCGGAAATCATCCGTCGTCTGGGCGTCAT > NC_000913/3065595‑3065850
|
ataatGCGGTAATGGCGCGTCTGGGGGAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAAtc > 1:121116/1‑140 (MQ=255)
ggTAATGGCGCGTCTGGGGGAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCg > 1:234847/1‑140 (MQ=255)
gTAATGGCGCGTCTGGGGGAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCGCCTCCAGCCTGACAATCTCGGCCGa < 2:240028/140‑1 (MQ=255)
tAATGGCGCGTCTGGGGGAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGAt > 2:159444/1‑140 (MQ=255)
gcgcGTCTGGGGGAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCt > 1:403890/1‑140 (MQ=255)
cgTCTGGGGGAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTgcg < 2:304108/140‑1 (MQ=255)
gAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTa < 2:121116/140‑1 (MQ=255)
gAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTa < 1:79601/140‑1 (MQ=255)
cGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAat > 1:21227/1‑140 (MQ=255)
aTTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGa < 2:179250/140‑1 (MQ=255)
tgTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGc < 1:452786/140‑1 (MQ=255)
tGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCAt > 1:403068/1‑130 (MQ=255)
tGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCAt < 2:403068/130‑1 (MQ=255)
tGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCg < 1:442019/139‑1 (MQ=255)
tGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCg > 2:442019/1‑139 (MQ=255)
tGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGt > 1:15243/1‑140 (MQ=255)
cTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTcc > 1:112217/1‑140 (MQ=255)
ggAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAgg < 1:348066/140‑1 (MQ=255)
aTCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGc > 1:182098/1‑128 (MQ=255)
aTCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGc < 2:182098/128‑1 (MQ=255)
cGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGAtt < 2:15243/140‑1 (MQ=255)
tggtgCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTcc > 2:48682/1‑140 (MQ=255)
tgCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAAt > 2:403132/1‑140 (MQ=255)
ttACTGGAAACCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAATAAccc < 1:259695/140‑1 (MQ=255)
aaaCCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAATAACCCGGAAatc > 1:409536/1‑140 (MQ=255)
aCCGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAATAACCCGGAAatcat > 1:175494/1‑140 (MQ=255)
ccGGCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAATAACCCGGAAatcatc > 1:308523/1‑140 (MQ=255)
ggCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAATAACCCGGAAATCATCcg < 2:234847/140‑1 (MQ=255)
ggCAAAATCAGCGGGGCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAATAACCCGGAAATCATCcg > 1:451972/1‑140 (MQ=255)
gCCAGCACCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAATAACCCGGAAATCATCCGTCGTCTGGGCGTCAt < 2:403890/140‑1 (MQ=255)
|
ATAATGCGGTAATGGCGCGTCTGGGGGAAAACCCGGTAATTCCTCCGTTTATGATGTATTCGGAAGTGCTACAGGAATCGGTGGTGCATTTACTGGAAACCGGCAAAATCAGCGGGGCCAGCGCCTCCAGCCTGACAATCTCGGCCGATTCCCTGCGCAAGATTTACGACAATATGGATTACTTTGCCAGCCGCATTGTGTTGCGTCCGCAGGAGATTTCCAATAACCCGGAAATCATCCGTCGTCTGGGCGTCAT > NC_000913/3065595‑3065850
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
