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 |
|
A14 F56 I20 R2
|
1958 |
92.1 |
3575798 |
91.1% |
3257551 |
126.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
CP006881 |
2,174,064 |
G→C |
H288D (CAT→GAT) |
U712_10875 ← |
CCA‑adding enzyme |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | CP006881 | 2,174,064 | 0 | G | C | 95.5%
| 65.7
/ NA
| 22 | H288D (CAT→GAT) | U712_10875 | CCA‑adding enzyme |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base C (13/8); minor base A (0/1); total (13/9) |
| Fisher's exact test for biased strand distribution p-value = 4.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TATTTTGAATGTCCTTTAGTTTTTCATCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAAAGAAGTGATTTTTCCCCGGCTTTGTACATTGACATAGTGTCAAGGCTCTGGCCAAACGTATGGGAAATGTGAATCGCTTCCTTCATCACTTTTCCCGGAAGCTTCCATGCTTTCAGGAAAAGCGGCGCATCTTTCAAATCTATTTCAAGATCAATTAAAAGCGCAGCCCAAAGCTCTTCA > CP006881/2173929‑2174182
|
cgtactGAATGTCCTTCAGTTTCTTTTCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATcgg > 3:94325/6‑138 (MQ=255)
gtactGAATGTCCTTCAGTTTCTTTTCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATcggca < 8:308515/135‑3 (MQ=255)
gtactGAATGTCCTTCAGTTTCTTTTCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATcggca < 7:293885/135‑3 (MQ=255)
gtactGAATGTCCTTCAGTTTCTTTTCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATcggca < 5:226415/135‑3 (MQ=255)
gtactGAATGTCCTTCAGTTTCTTTTCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATcggca < 3:266262/135‑3 (MQ=255)
tGTCCTTCAGTTTCTTTTCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAAt > 6:290236/1‑139 (MQ=255)
tGTCCTTCAGTTTCTTTTCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAAt > 5:350233/1‑139 (MQ=255)
gTCCTTCAGTTTCTTTTCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGAGGTTTTTTCCCAGCGCTGTACAGTGTCATTGCGTCACCGCTCTGGCCAACCGTATCGGCAAGGTGAAtg > 1:215743/1‑138 (MQ=255)
cttttcatcCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTtgat < 7:2406/134‑1 (MQ=255)
ttttcatcCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTtgatca < 6:259403/136‑1 (MQ=255)
aaGCTGCGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTc < 2:331649/139‑1 (MQ=255)
cGATATTTTGGCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGaa > 1:359579/1‑138 (MQ=255)
gCCGCTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGgcgcgt > 1:42345/1‑137 (MQ=255)
cTGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCttt < 2:42345/139‑1 (MQ=255)
tGAGAGCAGTGCTTTTTTCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTc > 3:440333/1‑139 (MQ=255)
tgcttttttCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTAtg > 4:305824/4‑138 (MQ=255)
cttttttCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTAtgcc < 3:305824/138‑4 (MQ=255)
cgattttCCCAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTAtgcc < 8:197962/136‑4 (MQ=255)
ttcccAGCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATAGTCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTATGCCAAgg < 4:179756/136‑2 (MQ=255)
agCTCTGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTATGCCAAGGTTAAt > 3:386818/2‑138 (MQ=255)
tGTACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTATGCCAAGGttaattaa > 4:439254/1‑136 (MQ=255)
tACATTGTCATTGCGTCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTATGCCAAGGTTAATTAAAAgag < 6:350233/139‑3 (MQ=255)
ttgcgtCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTATGCCAAGGTTAATTAAAAGAGCAGCCCAAAg > 7:166910/5‑139 (MQ=255)
ttgcgtCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTAAAAAATATTACAAGGTTAATTAAAAGAGCAGCCCaaac > 2:359990/5‑138 (MQ=255)
gcgtCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTATGCCAAGGttaattaa < 2:104026/120‑1 (MQ=255)
gcgtCAAGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTCTTTCAAAACTATGCCAAGGttaattaa > 1:104026/3‑122 (MQ=255)
aaGGCTCTGGCCAAACGTATCGGCAATGTGAATGGCTTCCTTGATCACTTTTCCCGGGAGCTTCCAGGCTTTCAGGAAAAGGGGCGCGTGTTTCAAAACTATGCCAAGGTTAATTAAAAGAGCAGCCCAAAGCTCCTCa > 5:100129/1‑139 (MQ=255)
|
TATTTTGAATGTCCTTTAGTTTTTCATCATCCAGTTTTTCGTTTTGCCGAAGCTGCGATATTTTGGCCGCTGAAAGAAGTGATTTTTCCCCGGCTTTGTACATTGACATAGTGTCAAGGCTCTGGCCAAACGTATGGGAAATGTGAATCGCTTCCTTCATCACTTTTCCCGGAAGCTTCCATGCTTTCAGGAAAAGCGGCGCATCTTTCAAATCTATTTCAAGATCAATTAAAAGCGCAGCCCAAAGCTCTTCA > CP006881/2173929‑2174182
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ 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
