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 |
|
A1 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,885,984 |
C→T |
100% |
intergenic (‑109/+250) |
ygcB ← / ← cysH |
conserved hypothetical protein, member of DEAD box family/3'‑phosphoadenosine 5'‑phosphosulfate reductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,885,984 | 0 | C | T | 79.4%
| 60.1
/ 9.6
| 29 | intergenic (‑109/+250) | ygcB/cysH | conserved hypothetical protein, member of DEAD box family/3'‑phosphoadenosine 5'‑phosphosulfate reductase |
| Reads supporting (aligned to +/- strand): ref base C (1/5); new base T (17/6); total (18/11) |
| Fisher's exact test for biased strand distribution p-value = 1.85e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GCTATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGCCTGG > W3110S.gb/2885920‑2886054
|
gCTATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAaagaa < 1:1476391/71‑1 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga < 1:1907785/69‑1 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga < 1:1380039/69‑1 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga < 1:1041806/69‑1 (MQ=255)
tttttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAagaaga < 1:557147/69‑1 (MQ=255)
tttCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGAc > 1:803459/1‑70 (MQ=255)
cATAAATATCGAATTATAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAAtt > 1:567344/1‑70 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:735244/1‑71 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:50087/1‑71 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:502630/1‑71 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:1878665/1‑71 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:1563392/1‑71 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:1562741/1‑71 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:1540390/1‑71 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:1402895/1‑71 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:1312525/1‑71 (MQ=255)
cATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTg > 1:1123587/1‑71 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg > 1:773796/1‑71 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTg > 1:927973/1‑71 (MQ=255)
aaTATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAGTTGTTTg > 1:1872525/1‑71 (MQ=255)
ttACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAAc < 1:187115/71‑1 (MQ=255)
ttACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAAc < 1:1559926/71‑1 (MQ=255)
ttACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAAc < 1:1091615/71‑1 (MQ=255)
agaGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGc > 1:1633181/3‑71 (MQ=255)
accgTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACg > 1:841586/4‑70 (MQ=255)
aCAGTGATATACACATGTCTTGCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGc > 1:1063408/1‑71 (MQ=255)
tccTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGaaa < 1:22401/69‑1 (MQ=255)
gCCTCCCTGTAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGaaa < 1:1444001/70‑1 (MQ=255)
gCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGaaa < 1:39299/70‑1 (MQ=255)
cAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGCCTgg > 1:65098/1‑71 (MQ=255)
|
GCTATTTTTCGATGCTGCTCATAAATATCGAATTACAGTGATATACACATGTCTTGCCTCCCTGCAAAGAAGAGACTAACATTCGAATTGTTTGGGTTCGAACGCTGGCCTCAGGTTGATAGAAATATCGCCTGG > W3110S.gb/2885920‑2886054
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
