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 R1
|
57 |
0.0 |
661283 |
90.4% |
597799 |
68.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,285,340 |
C→A |
100% |
L66L (CTG→CTT) |
argH ← |
argininosuccinate lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,285,340 | 0 | C | A | 95.7%
| 74.1
/ ‑2.3
| 23 | L66L (CTG→CTT) | argH | argininosuccinate lyase |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base A (0/22); total (1/22) |
| Fisher's exact test for biased strand distribution p-value = 4.35e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.84e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
CAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCCAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTGCTCTTCTGCGGTTAACACGCCTACCGTGAC > minE/2285306‑2285405
|
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:399204/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:97158/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:597811/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:593186/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:580641/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:571803/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:53690/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:498306/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:45325/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:109034/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:343818/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:281810/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:230337/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:217938/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:215126/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:194471/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:172981/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:171165/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:135914/70‑1 (MQ=255)
cAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:10944/70‑1 (MQ=255)
aaGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:641466/69‑1 (MQ=255)
aaGGATTTGTTGTGGCCTGGCGCGAACATCTTCAAGCAACAAGTTCAGCGCCTCTTCCAGTTGCGCCTg < 1:644205/69‑1 (MQ=255)
ttCCAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTGCTCTTCTGCGGTTAACACGCCTACCGTGAc > 1:531481/1‑69 (MQ=255)
|
CAAGGATTTGTTGTGGCCTGGCGCGAACATCTTCCAGCAACACGTTCAGCGCCTCTTCCAGTTGCGCCTGCTCTTCTGCGGTTAACACGCCTACCGTGAC > minE/2285306‑2285405
|
| 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
