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 |
|
A11 F1 I1 R1
|
21 |
62.2 |
4089897 |
94.3% |
3856772 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,500,634 |
T→G |
K57T (AAG→ACG) |
glgC ← |
glucose‑1‑phosphate adenylyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,500,634 | 0 | T | G | 97.0%
| 250.9
/ ‑2.8
| 66 | K57T (AAG→ACG) | glgC | glucose‑1‑phosphate adenylyltransferase |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base G (27/37); total (28/38) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.52e-01 |
GGGTTATCACGCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACGTCCTCCC > REL606/3500563‑3500705
|
gggTTATCACGCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTAcc > 2:979841/1‑76 (MQ=255)
gggTTATCACGCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTAcc > 2:492551/1‑76 (MQ=255)
gTTATCACGCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACTTAccgc > 1:1250111/1‑76 (MQ=255)
ttATCACGCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTAccgcc < 1:992004/76‑1 (MQ=255)
aTCACGCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGa < 2:1504043/76‑1 (MQ=255)
aCGCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAgt < 1:1424061/76‑1 (MQ=255)
cGCCCATACGACGGATCCCGGAGATGCNGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAgtg > 2:7828/1‑76 (MQ=255)
gCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAgtgt < 2:895653/76‑1 (MQ=255)
gCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAgtgt > 1:1602636/1‑76 (MQ=255)
gCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAgtgt < 2:1535424/76‑1 (MQ=255)
cccATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTa > 1:628081/1‑76 (MQ=255)
ccATACGACGGATCCCGGAGTTGATGCAGTTAGTCAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTAc < 1:570838/76‑1 (MQ=255)
ccATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTAc < 1:806536/76‑1 (MQ=255)
ccATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTAc < 1:1016737/76‑1 (MQ=255)
cATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACg < 1:653786/76‑1 (MQ=255)
cATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGACGAAGTGTACg < 1:116372/76‑1 (MQ=255)
cANACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGTAGTGGNCg < 2:1660364/76‑1 (MQ=255)
aTACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACgg < 1:440693/76‑1 (MQ=255)
aTACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACgg > 1:684860/1‑76 (MQ=255)
cgacgGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCg < 2:1229362/76‑1 (MQ=255)
cgacgGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCg > 2:1033067/1‑76 (MQ=255)
cgacgGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCg < 2:357205/76‑1 (MQ=255)
gATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGtttt > 2:1291161/1‑76 (MQ=255)
gATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGtttt < 2:1498410/76‑1 (MQ=255)
gATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGtttt < 1:1402552/76‑1 (MQ=255)
cccGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATTATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCt < 2:1758094/76‑1 (MQ=255)
cccGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCt > 1:1293747/1‑76 (MQ=255)
cccGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCt < 2:684859/76‑1 (MQ=255)
cGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCg < 2:929370/76‑1 (MQ=255)
cGGAGTTGATGCAGCTAGATAGCGCAAAGTCGATAATGCGTAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCg < 2:44107/76‑1 (MQ=255)
ggAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGc < 1:886309/76‑1 (MQ=255)
gAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCt < 2:607200/76‑1 (MQ=255)
aGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCtt < 2:1268540/76‑1 (MQ=255)
aGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACTGCCGAAGTGTACGACCGGTTTTTTTCGCtt > 1:36020/1‑76 (MQ=255)
gTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTa > 2:1724314/1‑76 (MQ=255)
tGCAGTGAGACAGCGCAAAGTGGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGNTTATTTGt < 1:1960580/76‑1 (MQ=255)
gCAGTTAGACGGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGtt < 1:1570051/76‑1 (MQ=255)
cAGTTAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTa < 1:484303/76‑1 (MQ=255)
tAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATc < 2:1177159/76‑1 (MQ=255)
tAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATc < 1:1633837/76‑1 (MQ=255)
tAGACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATc > 2:452633/1‑76 (MQ=255)
gACAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCt < 1:190158/76‑1 (MQ=255)
aCAGCGCAAAGTCGNTAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATGGGTTAAATCCtt < 1:1746000/76‑1 (MQ=255)
cAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTc < 1:1492128/76‑1 (MQ=255)
cAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTc < 2:812412/76‑1 (MQ=255)
cAGCGCAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTc > 2:1282796/1‑76 (MQ=255)
cAAAGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCg > 2:1959003/1‑76 (MQ=255)
aaaGTCGATCATGCGGAGCGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTNAANTCTTCAGGCgg > 2:328146/1‑76 (MQ=255)
aaaGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCgg < 1:595008/76‑1 (MQ=255)
aaaGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCgg > 2:68376/1‑76 (MQ=255)
aaaGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCgg > 2:1868294/1‑76 (MQ=255)
aaaGTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGCCTTTGCTCGATTATTGGTTAAGTCCNTCAGGCgg > 2:348924/1‑76 (MQ=255)
gTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCgggca > 2:461711/1‑74 (MQ=255)
gTCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTa < 2:657233/76‑1 (MQ=255)
gTCGATAATGAGGAACGGACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTa > 1:159635/1‑76 (MQ=255)
tCGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTAc > 2:1825275/1‑76 (MQ=255)
cGATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTAcc > 1:834503/1‑76 (MQ=255)
gATAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCa < 1:973535/76‑1 (MQ=255)
gATAATGCCGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCa > 1:1889501/1‑76 (MQ=255)
aTAATGCGGAATGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCAc > 1:51065/1‑76 (MQ=255)
aTAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTACATCCTTCAGGCGGGTACCAc > 1:2029983/1‑76 (MQ=255)
aTAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCAc < 1:488991/76‑1 (MQ=255)
aTAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCAc > 2:1204620/1‑76 (MQ=255)
tAATGCGGAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACg < 1:636803/76‑1 (MQ=255)
gAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACGTCCTccc > 1:1179724/1‑76 (MQ=255)
gAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACGTCCTccc < 1:671124/76‑1 (MQ=255)
gAACGTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACGTCCTccc < 2:1178087/76‑1 (MQ=255)
|
GGGTTATCACGCCCATACGACGGATCCCGGAGTTGATGCAGTTAGACAGCGCAAAGTCGATAATGCGGAACTTACCGCCGAAGTGTACGGCCGGTTTTGCTCGCTTATTGGTTAAATCCTTCAGGCGGGTACCACGTCCTCCC > REL606/3500563‑3500705
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
