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 F28 I2 R1
|
330 |
0.0 |
2544031 |
91.9% |
2337964 |
62.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,170,323 |
(T)5→6 |
intergenic (+50/‑242) |
tufA → / → chiA |
protein chain elongation factor EF‑Tu/periplasmic endochitinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,170,318 | 1 | . | T | 87.5%
| 19.4
/ ‑2.5
| 8 | intergenic (+45/‑247) | tufA/chiA | protein chain elongation factor EF‑Tu/periplasmic endochitinase |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base T (7/0); total (7/1) |
| Fisher's exact test for biased strand distribution p-value = 1.25e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCTAATTACACGTTAATTAGTTTTGAATTGAAAAGGGCGCTTCGGCGCCC‑TTTTTGCATTTGTTGACGGCATATCTTATTCGTACTGTCAGAACGAATAAATTA > W3110S.gb/4170269‑4170372
|
gCTAATTACACGTTAATTAGTTTTGAATTGAAAAGGGCGCTTCGGCGCCCTTTTTTGCAttt > 1:1766348/1‑62 (MQ=255)
gCTAATTACACGTTAATTAGTTTTGAATTGAAAAGGGCGCTTCGGCGCCCTTTTTTGCATttgtt > 1:1362186/1‑65 (MQ=255)
gCTAATTACACGTTAATTAGTTTTGAATTGAAAAGGGCGCTTCGGCGCCCTTTTTTGCATttgtt > 1:1577325/1‑65 (MQ=255)
gCTAATTACACGTTAATTAGTTTTGAATTGAAAAGGGCGCTTCGGCGCCCTTTTTTGCATttgtt > 1:1750068/1‑65 (MQ=255)
gCTAATTACACGTTAATTAGTTTTGAATTGAAAAGGGCGCTTCGGCGCCCTTTTTTGCATttgtt > 1:1799784/1‑65 (MQ=255)
gCTAATTACACGTTAATTAGTTTTGAATTGAAAAGGGCGCTTCGGCGCCCTTTTTTGCATttgtt > 1:1844533/1‑65 (MQ=255)
gCTAATTACACGTTAATTAGTTTTGAATTGAAAAGGGCGCTTCGGCGCCCTTTTTTGCATttgtt > 1:1926386/1‑65 (MQ=255)
ttCGGCGCCC‑TTTTTGCATTTGTTGACGGCATATCTTATTCGTACTGTCAGAACGAATAAatta < 1:1717030/64‑1 (MQ=255)
|
GCTAATTACACGTTAATTAGTTTTGAATTGAAAAGGGCGCTTCGGCGCCC‑TTTTTGCATTTGTTGACGGCATATCTTATTCGTACTGTCAGAACGAATAAATTA > W3110S.gb/4170269‑4170372
|
| 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
