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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
725,764 |
T→G |
36.4% |
P29P (CCA→CCC) |
yceF ← |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 725,764 | 0 | T | G | 36.4%
| 20.9
/ 35.9
| 44 | P29P (CCA→CCC) | yceF | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (17/11); new base G (6/10); total (23/21) |
| Fisher's exact test for biased strand distribution p-value = 2.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.60e-01 |
TTTTCTTGTGCCAGTCGAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAGCGCGACGCCATGGCGAGG > minE/725696‑725825
|
ttttCTTGTGCCAGTCGAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACctct > 1:2921186/1‑69 (MQ=255)
ccAGTCGAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGca < 1:1238186/68‑1 (MQ=255)
gAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTg > 1:3080178/1‑54 (MQ=255)
gAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTc > 1:1067476/1‑67 (MQ=255)
gAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTc > 1:2185123/1‑67 (MQ=255)
gAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTc > 1:217159/1‑67 (MQ=255)
gAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTc > 1:1893543/1‑67 (MQ=255)
gAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTc > 1:2569304/1‑67 (MQ=255)
gAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTc > 1:3226849/1‑67 (MQ=255)
gAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTc > 1:626860/1‑67 (MQ=255)
gATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGtttt > 1:121894/1‑66 (MQ=255)
tcgtcgCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAgaga > 1:3050444/1‑52 (MQ=255)
tcgtcgCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAgaga > 1:2974214/1‑52 (MQ=255)
tcgtcgCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAgaga > 1:882520/1‑52 (MQ=255)
tcgtcgCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAgaga > 1:2402823/1‑52 (MQ=255)
cgtcgCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCag > 1:140666/1‑67 (MQ=255)
cgtcgCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCag > 1:2805403/1‑67 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:3291472/69‑1 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:2945780/69‑1 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:3375317/69‑1 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:988507/69‑1 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:2362449/69‑1 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:1148320/69‑1 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:1398626/69‑1 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:162346/69‑1 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:1697173/69‑1 (MQ=255)
gCTGCGTGGAGTTTCGTCGACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgc < 1:2381286/69‑1 (MQ=255)
tGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgcgc < 1:1790592/69‑1 (MQ=255)
tGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgcgc < 1:1786636/69‑1 (MQ=255)
tGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgcgc < 1:1139657/69‑1 (MQ=255)
tGCGTGGGGTTTCGTCGACCTCTGGTCCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAgcgc < 1:2710477/69‑1 (MQ=255)
cGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGATTTTCCAGAAGAgcgc < 1:2702514/67‑1 (MQ=255)
gggTTTCGTCGACCTCTGGTGCTGCACATTCAAAagag < 1:2909067/38‑1 (MQ=255)
gggTTTCGTCGACCTCTGGTGCTGCACATTCAAAagag < 1:1824099/38‑1 (MQ=255)
gggTTTCGTCGACCTCTGGTGCTGCACATTCAAAagag < 1:736645/38‑1 (MQ=255)
gggTTTCGTCGACCTCTGGTGCTGCACATTCAAAagag < 1:2609159/38‑1 (MQ=255)
gggTTTCGTCGACCTCTGGTGCTGCACATTCAAAagag < 1:1376199/38‑1 (MQ=255)
gTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTg > 1:415843/1‑41 (MQ=255)
gTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAGCGCGACGCCAt > 1:1481719/1‑69 (MQ=255)
gACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAGCGCGACGCCAGGGCGAgg > 1:2414486/1‑68 (MQ=255)
gACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAGCGCGACGCCAGGGCGAgg > 1:554161/1‑68 (MQ=255)
gACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAGCGCGACGCCAGGGCGAgg > 1:1140873/1‑68 (MQ=255)
gACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAGCGCGACGCCAGGGCGAgg > 1:2470237/1‑68 (MQ=255)
gACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAGCGCGACGCCAGGGCGAgg > 1:1701926/1‑68 (MQ=255)
gACCTCGGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAGCGCGACGCCAGGGCGAgg > 1:1127252/1‑68 (MQ=255)
|
TTTTCTTGTGCCAGTCGAAGCACCAACTGTCGCGGTGATTCGTCGCTGCGTGGGGTTTCGTCGACCTCTGGTGCTGCACATTCAAAAGAGATTTGCAGTTTTTCCAGAAGAGCGCGACGCCATGGCGAGG > minE/725696‑725825
|
| 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
