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 |
494,622 |
C→T |
41.4% |
S224N (AGC→AAC) |
galM ← |
galactose‑1‑epimerase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 494,622 | 0 | C | T | 41.4%
| 13.5
/ 25.8
| 41 | S224N (AGC→AAC) | galM | galactose‑1‑epimerase |
| Reads supporting (aligned to +/- strand): ref base C (8/16); new base T (3/14); total (11/30) |
| Fisher's exact test for biased strand distribution p-value = 3.09e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CGTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCCGTCGTGCGGAAT > minE/494560‑494674
|
cGTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGa < 1:3179997/69‑1 (MQ=255)
cGTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGa < 1:1109572/69‑1 (MQ=255)
cGTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGa < 1:2330096/69‑1 (MQ=255)
cGTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGa < 1:1492405/69‑1 (MQ=255)
cGTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGa < 1:1637358/69‑1 (MQ=255)
cGTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGa < 1:1695321/69‑1 (MQ=255)
cGTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGa < 1:1842817/69‑1 (MQ=255)
gTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGa < 1:361939/68‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAATAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:2478732/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTTACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:515897/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCATAAGAGGtt < 1:3187992/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:1156817/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:2624177/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:21268/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:204821/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:2028164/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:1870651/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:1789988/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:3411504/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:1388792/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:501275/69‑1 (MQ=255)
ttGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATCAAAAGAGGtt < 1:1315619/69‑1 (MQ=255)
cgtcgtcgGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAg < 1:2560651/69‑1 (MQ=255)
cgtcgtcgGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAg < 1:3159395/69‑1 (MQ=255)
cgtcgtcgGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAg < 1:3155382/69‑1 (MQ=255)
cgtcgtcgGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAg < 1:2899412/69‑1 (MQ=255)
cgtcgtcgGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAg > 1:2884546/1‑69 (MQ=255)
cgtcgtcgGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAg < 1:2664941/69‑1 (MQ=255)
cgtcgtcgGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAg < 1:2589992/69‑1 (MQ=255)
gtcgtcgGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAg < 1:1467962/68‑1 (MQ=255)
gAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATc > 1:2933573/1‑37 (MQ=255)
gAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATc > 1:476784/1‑37 (MQ=255)
gAAACTCACTGGCGATGATTTTGGCGTTGCGGAAATc > 1:1333033/1‑37 (MQ=255)
aaCTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCcgtcg < 1:876945/69‑1 (MQ=255)
ggCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCCGTCGTGCGGaa > 1:700229/1‑68 (MQ=255)
ggCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCCGTCGTGCGGAAt > 1:3107556/1‑69 (MQ=255)
ggCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCCGTCGTGCGGAAt > 1:2758481/1‑69 (MQ=255)
ggCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCCGTCGTGCGGAAt > 1:1865409/1‑69 (MQ=255)
ggCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCCGTCGTGCGGAAt > 1:1450168/1‑69 (MQ=255)
ggCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCCGTCGTGCGGAAt > 1:1244484/1‑69 (MQ=255)
ggCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCCGTCGTGCGGAAt > 1:680337/1‑69 (MQ=255)
|
CGTAACCTTTCACTTTGCGCTGATCGTCGTCGGCAAGAAACTCACTGGCGATGATTTTGGCGCTGCGGAAATCAAAAGACGTTCCGGCGACAGATTTCAGGCCGTCGTGCGGAAT > minE/494560‑494674
|
| 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
