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 |
|
A2 F21 I0 R2
|
44 |
10.9 |
588504 |
78.3% |
460798 |
57.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,668,114 |
G→A |
100% |
L399L (CTG→CTA) |
xseA → |
exonuclease VII, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,668,114 | 0 | G | A | 87.5%
| 16.6
/ ‑2.9
| 8 | L399L (CTG→CTA) | xseA | exonuclease VII, large subunit |
| Reads supporting (aligned to +/- strand): ref base G (0/1); new base A (3/4); total (3/5) |
| 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 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TTTCGGTAATGCAGTAACGCACCTCGAAGCCGTAAGCCCACTGTCAACGCTGGCGCGTGGAT > minE/1668072‑1668133
|
tttCGGTAATGCAGTAACGCACCTCGAAGCCGTAAGCCCACTGTCAACGCTGGCGCGTGGAt < 1:371849/62‑1 (MQ=255)
tttCGGTAATGCAGTAACGCACCTCGAAGCCGTAAGCCCACTATCAACGCTGGCGCGTGGAt < 1:212336/62‑1 (MQ=255)
tttCGGTAATGCAGTAACGCACCTCGAAGCCGTAAGCCCACTATCAACGCTGGCGCGTGGAt < 1:371267/62‑1 (MQ=255)
tttCGGTAATGCAGTAACGCACCTCAAAGCCGTAAGCCCACTATCAACGCTGGCGCGTGGAt < 1:550226/62‑1 (MQ=255)
ttCGGTAATGCAGTAACGCACCTCGAAGCCGTAAGCCCACTATCAACGCTGGCGCGTGGa > 1:215913/1‑60 (MQ=255)
ttCGGTAATGCAGTAACGCACCTCGAAGCCGTAAGCCCACTATCAACGCTGGCGCGTGGa > 1:321453/1‑60 (MQ=255)
ttCGGTAATGCAGTAACGCACCTCGAAGCCGTAAGCCCACTATCAACGCTGGCGCGTGGa > 1:339810/1‑60 (MQ=255)
ttCGGTAATGCAGTAACGCACCTCGAAGCCGTAAGCCCACTATCAACGCTGGCGCGTGGAt < 1:241192/61‑1 (MQ=255)
|
TTTCGGTAATGCAGTAACGCACCTCGAAGCCGTAAGCCCACTGTCAACGCTGGCGCGTGGAT > minE/1668072‑1668133
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
