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 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,426,674 |
T→C |
39.4% |
D393D (GAT→GAC) |
trkG → |
potassium transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,426,674 | 0 | T | C | 39.4%
| 18.3
/ 34.5
| 33 | D393D (GAT→GAC) | trkG | potassium transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (7/13); new base C (4/9); total (11/22) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTTATACTGG > W3110S.gb/1426613‑1426741
|
aTCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATg < 1:270096/71‑1 (MQ=255)
aTCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATg < 1:2570355/71‑1 (MQ=255)
aTCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATg < 1:785511/71‑1 (MQ=255)
aTCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATg < 1:1762578/71‑1 (MQ=255)
agCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGtttct < 1:153380/71‑1 (MQ=255)
gAGTGTAAATGTAGGAGGGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGtttcttttttctt < 1:212566/70‑1 (MQ=255)
tAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTtata > 1:953793/1‑69 (MQ=255)
tAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTtata > 1:412056/1‑69 (MQ=255)
tAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTtata > 1:2946228/1‑69 (MQ=255)
tAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTtata > 1:2891068/1‑69 (MQ=255)
tAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTtata > 1:1488796/1‑69 (MQ=255)
ggaggGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCAc > 1:706037/1‑71 (MQ=255)
ggaggGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCAc > 1:2620557/1‑71 (MQ=255)
ggaggGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCAc > 1:925265/1‑71 (MQ=255)
ggaggGAAGATAGTTACAGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCAc > 1:2965812/1‑71 (MQ=255)
aGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta > 1:1484566/1‑71 (MQ=255)
aGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta > 1:3314168/1‑71 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:873029/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:548083/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:530177/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:88142/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:2855336/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:1311013/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:2836593/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:1782373/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:1736195/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:1406084/70‑1 (MQ=255)
gTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTta < 1:1335622/70‑1 (MQ=255)
cAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTTATACTg < 1:753911/71‑1 (MQ=255)
aGACCGTGTAATGAGGTCTTTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTTATACTgg < 1:1719064/71‑1 (MQ=255)
aGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTTATACTgg < 1:3198613/71‑1 (MQ=255)
aGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTTATACTgg < 1:90293/71‑1 (MQ=255)
aGACCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTTATACTgg < 1:1335226/71‑1 (MQ=255)
|
ATCAGCTTTCTCATCCCAGAGCGTTGTTGAGTGTAAATGTAGGAGGGAAGATAGTTACAGATCGTGTAATGAGGTCTGTATGGAGTTTCTTTTTTCTTTATACTCTCTTCACGGTGTTTTTTATACTGG > W3110S.gb/1426613‑1426741
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
