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 |
|
A92 F1 I1 R1
|
15 |
58.2 |
3997918 |
96.1% |
3841999 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,499,829 |
G→T |
F325L (TTC→TTA) |
glgC ← |
glucose‑1‑phosphate adenylyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,499,829 | 0 | G | T | 97.8%
| 164.5
/ ‑2.4
| 45 | F325L (TTC→TTA) | glgC | glucose‑1‑phosphate adenylyltransferase |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base T (25/19); total (26/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.90e-01 |
AACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTCCGG > REL606/3499756‑3499900
|
acccGAAGATCACACACCCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTaa < 2:605700/74‑1 (MQ=255)
aaCCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGACCCTGCACTaa > 2:1636156/1‑76 (MQ=255)
ccGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAAtt > 1:1256437/1‑76 (MQ=255)
gagaTCACACAACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCg > 2:1585763/1‑76 (MQ=255)
gaTCACACAACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCt > 1:1605438/1‑76 (MQ=255)
caACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTa > 2:1633477/1‑76 (MQ=255)
caACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTa > 2:1017965/1‑76 (MQ=255)
ccgGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGAtt > 2:209598/1‑76 (MQ=255)
cgGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTc > 2:1641993/1‑76 (MQ=255)
aGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAgg < 1:1492953/76‑1 (MQ=255)
gTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTTATTGTAggg > 1:1015038/1‑75 (MQ=255)
tGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTg > 1:43781/1‑76 (MQ=255)
tGAGTTAAGGCTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTg < 2:1390945/76‑1 (MQ=255)
tAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAAt < 2:1788850/76‑1 (MQ=255)
tAAGGGTCATCCCGCGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAAt < 2:1883453/76‑1 (MQ=255)
aaGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTTATTGTAGGTGCGAAtt > 1:1707113/1‑76 (MQ=255)
aaGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAAtt > 2:430459/1‑76 (MQ=255)
aGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTg > 2:957680/1‑76 (MQ=255)
aGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTg < 1:522913/76‑1 (MQ=255)
aGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTg > 1:513145/1‑76 (MQ=255)
ggTCATCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGCAATGATTCATTGTAGGTGGGAATTGGc > 2:859888/1‑76 (MQ=255)
tCCCGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAAtt < 2:1490370/76‑1 (MQ=255)
cccGTGGCTACCGGAGCGATCCTGCCCTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTg < 2:255027/76‑1 (MQ=255)
ccGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGc > 1:1643224/1‑76 (MQ=255)
cGTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTTATTGTAGGGGCGCATTGGCCAATTGCg > 2:465189/1‑76 (MQ=255)
gTGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGGAATGATTCATTGTAGGTGCGAAATGGCCAATTGCGa > 2:274170/1‑76 (MQ=255)
tGGCTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGAt > 2:1737912/1‑76 (MQ=255)
tGGCTACCGGAGCGAACCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGAt < 1:948892/76‑1 (MQ=255)
cTACCGGAGCTATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGt < 2:1375587/76‑1 (MQ=255)
cTACCGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGt < 1:1107214/76‑1 (MQ=255)
tgccGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTa > 2:826767/3‑76 (MQ=255)
ccGGAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACa > 2:1279723/1‑76 (MQ=255)
cGGAGCGATCGTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACat < 2:1393514/76‑1 (MQ=255)
ggAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACata < 1:537225/76‑1 (MQ=255)
gAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACatat < 1:798665/76‑1 (MQ=255)
gAGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACatat < 1:1655183/76‑1 (MQ=255)
aGCGATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATc < 1:1966503/76‑1 (MQ=255)
gATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAg < 2:1000138/76‑1 (MQ=255)
gATCCTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAg > 2:231808/1‑76 (MQ=255)
ccTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTc < 1:31955/76‑1 (MQ=255)
ccTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTc > 1:1351120/1‑76 (MQ=255)
cTGCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTcc > 2:246661/1‑76 (MQ=255)
tGCACTAATTCCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTCCg < 1:845122/76‑1 (MQ=255)
gCACTAATTTCGCTGGCGGTAATGGTTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTCCgg < 2:1711802/76‑1 (MQ=255)
gCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTCCgg > 2:1170350/1‑76 (MQ=255)
gCACTAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTCCgg > 2:338235/1‑76 (MQ=255)
gCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTCCgg > 2:1218569/1‑76 (MQ=255)
|
AACCGGAGATCACACAACCGCCGGAAACCAGTGAGTTAAGGGTCATCCCGTGGCTACCGGAGCGATCCTGCACGAATTTCGCTGGCGGTAATGATTCATTGTAGGTGCGAATTGGCCAATTGCGATCGTACATATCCAGCTCCGG > REL606/3499756‑3499900
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
