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 |
|
A69 F1 I1 R1
|
20 |
59.3 |
3764421 |
95.9% |
3610079 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,275,544 |
T→C |
D135G (GAT→GGT) |
yjcO ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,275,544 | 0 | T | C | 98.3%
| 239.6
/ ‑4.5
| 60 | D135G (GAT→GGT) | yjcO | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (18/41); total (18/42) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
TTAATGCCCACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGATCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGTATTTACCAGA > REL606/4275472‑4275615
|
ttAATGCCCACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCtt > 1:1519674/1‑76 (MQ=255)
tAATGCCCACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTc < 1:50634/76‑1 (MQ=255)
aTGCCCACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCg < 2:815278/76‑1 (MQ=255)
gCCCACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAg > 1:245728/1‑76 (MQ=255)
gCCCACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAg > 1:756078/1‑76 (MQ=255)
gCCCACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAg < 2:1052530/76‑1 (MQ=255)
gCCCACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAg < 2:55813/76‑1 (MQ=255)
cACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCg < 1:610965/76‑1 (MQ=255)
cACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCg < 1:1563547/76‑1 (MQ=255)
aCGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGt > 1:40773/1‑76 (MQ=255)
gCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGttt > 1:1181447/1‑76 (MQ=255)
ccGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGtttt < 1:302319/76‑1 (MQ=255)
cGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTc < 1:437532/76‑1 (MQ=255)
cGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTc < 2:1234182/76‑1 (MQ=255)
gTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCt < 1:968171/76‑1 (MQ=255)
ttGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTa > 2:1077532/1‑76 (MQ=255)
tGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTaa > 1:1696094/1‑76 (MQ=255)
ggCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAAc < 1:663316/76‑1 (MQ=255)
ggCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAAc < 1:303582/76‑1 (MQ=255)
ggCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAAc < 2:1232131/76‑1 (MQ=255)
ggCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAAc < 1:100512/76‑1 (MQ=255)
gCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACa < 1:34626/76‑1 (MQ=255)
cGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAg < 1:509840/76‑1 (MQ=255)
cGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAg < 1:1236173/76‑1 (MQ=255)
tAAATCAAACCAAGCAACATTTGGGCGTCGACCGCAACGTCGTTCTCCAGACCTTCCCAGCAGTTATCAAACAGca > 2:1837907/1‑75 (MQ=255)
aaaTCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGa > 1:24072/1‑76 (MQ=255)
aaTCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGaa < 1:1702730/76‑1 (MQ=255)
aTCAAACCAAGCAGCATTTTGGCATCGACGGCAGAGTCGTGCTCCAGGCCTTCCGAGGCGTTTTCTAACAGCGaaa < 1:1118997/76‑1 (MQ=255)
aTCAAACCAAGCAGCATTTAGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGaaa < 1:1118995/76‑1 (MQ=255)
cAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAAtt < 1:1397370/76‑1 (MQ=255)
cAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCtt < 2:1293260/76‑1 (MQ=255)
cagcaTTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGa > 2:1693131/1‑76 (MQ=255)
cagcaTTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTGTTCTAACAGCGCAAATGCCTTTGGa > 1:963587/1‑76 (MQ=255)
agcaTTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGAt < 1:868728/76‑1 (MQ=255)
agcaTTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGAt > 2:1811923/1‑76 (MQ=255)
caTTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATaa < 2:1357532/76‑1 (MQ=255)
aTTTGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAAt < 1:908401/76‑1 (MQ=255)
tttGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATc > 1:562272/1‑76 (MQ=255)
tGGGCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCg > 2:876689/1‑76 (MQ=255)
gggCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCgg < 2:990172/76‑1 (MQ=255)
gggCATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCgg < 1:1607572/76‑1 (MQ=255)
cATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGttt < 2:1379165/76‑1 (MQ=255)
cATCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGttt < 2:1690701/76‑1 (MQ=255)
aTCGACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTa > 2:451926/1‑76 (MQ=255)
tCGGCGGCAGAGTCGTTCTCCAGATCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGAGAATCCGGTTTAc < 2:112284/76‑1 (MQ=255)
gACGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTAccc < 1:985813/76‑1 (MQ=255)
cGGCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGc < 1:771466/76‑1 (MQ=255)
gCAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCtt < 1:348466/76‑1 (MQ=255)
cAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTg < 2:89301/76‑1 (MQ=255)
cAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTg < 2:1587869/76‑1 (MQ=255)
cAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTg < 2:1746931/76‑1 (MQ=255)
cAGAGTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTg > 1:1695481/1‑76 (MQ=255)
agagTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGa > 1:1364725/1‑76 (MQ=255)
gagTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAg < 1:908562/76‑1 (MQ=255)
agTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGt > 2:1847477/1‑76 (MQ=255)
gTCGTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGTa < 2:1163542/76‑1 (MQ=255)
gTTCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGTAttt < 2:39999/76‑1 (MQ=255)
ttCTCCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGTATTTa < 1:1366692/76‑1 (MQ=255)
ctcCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGTATTTAcc > 1:548118/1‑76 (MQ=255)
ctcCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGTATTTAcc < 1:1661818/76‑1 (MQ=255)
tcCAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGTATTTACCa < 2:864693/76‑1 (MQ=255)
cAGACCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGTATTTACCAGa > 1:675435/1‑76 (MQ=255)
|
TTAATGCCCACGCCGTTGGCGTAAATCAAACCAAGCAGCATTTGGGCATCGACGGCAGAGTCGTTCTCCAGATCTTCCGAGGCGTTTTCTAACAGCGAAATTGCCTTTGGATAATCCGGTTTACCCGCTTGAGTATTTACCAGA > REL606/4275472‑4275615
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
