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 |
|
A51 F1 I1 R1
|
20 |
58.0 |
3778966 |
96.2% |
3635365 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,497,383 |
T→A |
Q218L (CAG→CTG) |
glgP ← |
glycogen phosphorylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,497,383 | 0 | T | A | 98.3%
| 230.1
/ ‑3.0
| 59 | Q218L (CAG→CTG) | glgP | glycogen phosphorylase |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base A (18/40); total (18/41) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.94e-01 |
AATTTCGCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCTGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGAATGCGA > REL606/3497310‑3497454
|
aaTTTCGCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGa < 2:1607566/76‑1 (MQ=255)
aTTTCGCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGAt < 1:1304631/76‑1 (MQ=255)
aTTTCGCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGAt < 1:913986/76‑1 (MQ=255)
tttCGCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATc < 2:210741/76‑1 (MQ=255)
tCGCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGt < 2:1042861/76‑1 (MQ=255)
cGCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTa < 2:873374/76‑1 (MQ=255)
gCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTaa < 2:285965/76‑1 (MQ=255)
gCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTaa < 1:761823/76‑1 (MQ=255)
aCTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCg < 2:76227/76‑1 (MQ=255)
aCTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCg < 2:584464/76‑1 (MQ=255)
aCTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCg < 1:1384010/76‑1 (MQ=255)
cTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGa < 1:458867/76‑1 (MQ=255)
tGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGCAAGCGAc > 1:1106837/1‑76 (MQ=255)
cTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTcc > 2:1834618/1‑76 (MQ=255)
tGCGCACTCCACAAGCGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGAGCGTAAGCGACTCCCa < 2:1406308/76‑1 (MQ=255)
tGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCTGATCGTAAGCGACTCCCa < 2:1418899/76‑1 (MQ=255)
tGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCa < 2:672073/76‑1 (MQ=255)
aCTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAAtc > 1:934581/1‑76 (MQ=255)
cTCCACAACCGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAAtct < 1:713371/76‑1 (MQ=255)
cTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAAtct > 2:1766972/1‑76 (MQ=255)
cTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAAtct < 1:350905/76‑1 (MQ=255)
cTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAAtct < 1:116668/76‑1 (MQ=255)
cacaAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCtt > 1:815068/1‑76 (MQ=255)
cacaAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCtt > 1:1289292/1‑76 (MQ=255)
cacaAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCtt < 2:1392345/76‑1 (MQ=255)
cacaAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCtt < 2:1392322/76‑1 (MQ=255)
cacaAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCtt < 2:267722/76‑1 (MQ=255)
cacaAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCtt > 2:896755/1‑76 (MQ=255)
aaaCGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCgg > 2:473122/1‑76 (MQ=255)
cGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGttt > 2:27198/1‑76 (MQ=255)
cAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCa < 1:1336186/76‑1 (MQ=255)
aaCGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCaa < 1:1166878/76‑1 (MQ=255)
aaCGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCaa < 1:1143399/76‑1 (MQ=255)
aaCGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCaa < 1:568622/76‑1 (MQ=255)
gtgtTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGTTTTCAATcc < 2:1356291/76‑1 (MQ=255)
gtgtTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATcc < 2:292708/76‑1 (MQ=255)
tgtTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCTACTCCCAGAATCTCTTCGGTTTCAATCCa < 2:1084688/76‑1 (MQ=255)
tgtTGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCa < 2:250961/76‑1 (MQ=255)
ttGGTCGCGTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAgc < 1:1171689/76‑1 (MQ=255)
cgcgTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGtt < 1:692930/76‑1 (MQ=255)
cgcgTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGtt < 2:847020/76‑1 (MQ=255)
cgcgTCGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGtt > 1:1886059/1‑76 (MQ=255)
cGGTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGttttttt > 1:1585297/1‑76 (MQ=255)
ggTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTa < 1:1093843/76‑1 (MQ=255)
ggTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTa < 1:1834647/76‑1 (MQ=255)
gTATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTAc > 2:1577872/1‑76 (MQ=255)
tATCGTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTAcc > 2:297254/1‑76 (MQ=255)
tATCGTAACCAGGAATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTAcc > 2:1176646/1‑76 (MQ=255)
gTAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTcc > 1:1359769/1‑76 (MQ=255)
tAACCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCct < 1:685441/76‑1 (MQ=255)
aaCCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCctg < 2:1094033/76‑1 (MQ=255)
aaCCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCctg < 1:549952/76‑1 (MQ=255)
aaCCAGGGATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCctg > 1:1851203/1‑76 (MQ=255)
gggATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGaa < 1:1295846/76‑1 (MQ=255)
gggATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGaa < 1:984990/76‑1 (MQ=255)
ggATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGAAt < 1:1576749/76‑1 (MQ=255)
agATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGAAt < 1:260536/75‑1 (MQ=255)
gATTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGAATg < 2:899280/76‑1 (MQ=255)
aTTATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGCATGc > 1:245614/1‑76 (MQ=255)
ttATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGAATGCg > 1:1876094/1‑76 (MQ=255)
tATCAGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGAATGCGa > 1:669758/1‑76 (MQ=255)
|
AATTTCGCTACTGGCTTGCGCACTCCACAAACGCAACGTGTTGGTCGCGTCGGTATCGTAACCAGGGATTATCTGATCGTAAGCGACTCCCAGAATCTCTTCGGTTTCAATCCAGCGCGTTTTTTTACCTTCCTGCTGAATGCGA > REL606/3497310‑3497454
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
