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 |
663,712 |
C→G |
34.9% |
V196V (GTG→GTC) |
ycbX ← |
predicted 2Fe‑2S cluster‑containing protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 663,712 | 0 | C | G | 34.9%
| 55.2
/ 49.9
| 63 | V196V (GTG→GTC) | ycbX | predicted 2Fe‑2S cluster‑containing protein |
| Reads supporting (aligned to +/- strand): ref base C (22/19); new base G (10/12); total (32/31) |
| Fisher's exact test for biased strand distribution p-value = 6.03e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
GGCTGACGGTGGTGAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACC > minE/663660‑663772
|
ggCTGACGGTGGTGAAAATACAGCGGCTACAGGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:1423506/1‑68 (MQ=255)
ggCTGACGGTGGTGAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGa > 1:3320546/1‑68 (MQ=255)
ggCTGACGGTGGTGAAAATACAGCGGCTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:1384511/1‑68 (MQ=255)
ggCTGACGGTGGTGAAAATACAGCGGCTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:1489647/1‑68 (MQ=255)
ggCTGACGGTGGTGAAAATACAGCGGCTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:3121254/1‑68 (MQ=255)
ggCTGACGGTGGTGAAAATACAGCGGCTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:2461120/1‑68 (MQ=255)
ggCTGACGGTGGTGAAAATACAGCGGCTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:1576594/1‑68 (MQ=255)
ggCTGACGGTGGTGAAAATACAGCGGCTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:2837333/1‑68 (MQ=255)
ggCTGACGGTGGTGAAAATACAGCGGCTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:368589/1‑68 (MQ=255)
ggCTGACGGTGGTGAAAATACAGCGGCTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:1678059/1‑68 (MQ=255)
ggCTGACGGTGATGAAAATACAGCGGCTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGa > 1:146536/1‑68 (MQ=255)
gCTGACGGTGGTGAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAAt > 1:1421852/1‑69 (MQ=255)
gCTGACGGTGGTGAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAAt > 1:1444002/1‑69 (MQ=255)
gCTGACGGTGGTGAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAAt > 1:2914205/1‑69 (MQ=255)
gCTGACGGTGGTGAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAAt > 1:2617200/1‑69 (MQ=255)
cTGACGGTGGTGAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAAtg < 1:1405869/69‑2 (MQ=255)
cTGACGGTGGTGAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAATc < 1:2737241/69‑1 (MQ=255)
tggtgAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAATCACTTTcc < 1:933206/69‑1 (MQ=255)
tggtgAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAATCACTTTcc < 1:1277827/69‑1 (MQ=255)
gAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCaa < 1:2573006/50‑1 (MQ=255)
gAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCaa < 1:188971/50‑1 (MQ=255)
gAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCaa < 1:1301560/50‑1 (MQ=255)
gAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCaa < 1:2403902/50‑1 (MQ=255)
gAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCaa < 1:1813054/50‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:1040871/69‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:234976/69‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:299482/69‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:3004588/69‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:3173732/69‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:543608/69‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:774075/69‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:1307981/69‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:2169564/69‑1 (MQ=255)
cTACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:172113/69‑1 (MQ=255)
tACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:408590/68‑1 (MQ=255)
tACAAGGCTTAACCACATCAAACACGACATCACCAATGCGAATCACTTTCCAGCTATCTTCTTCCCAg < 1:490881/68‑1 (MQ=255)
ttAACCACATCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGAcgcg < 1:1642901/69‑1 (MQ=255)
ttAACCACATCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGAcgcg < 1:2887079/69‑1 (MQ=255)
acaTCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:449323/1‑69 (MQ=255)
acaTCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:81254/1‑69 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa < 1:560531/66‑1 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:1186824/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:3022516/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:575240/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa < 1:504776/66‑1 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:1153882/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa < 1:1246982/66‑1 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa < 1:1005316/66‑1 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:939435/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:1327328/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:1458195/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:3000930/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:1494329/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:1562184/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:2758839/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:179959/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa < 1:1839561/66‑1 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:2026184/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:2037025/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa > 1:2374986/1‑66 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGaa < 1:2167546/66‑1 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAacc < 1:1425045/69‑1 (MQ=255)
tCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAacc < 1:2908759/69‑1 (MQ=255)
|
GGCTGACGGTGGTGAAAATACAGCGGCTACAAGGTTTAACCACATCAAACACCACATCACCAATGCGAATCACTTTCCAGCGATCTTCTTCCCAGGCTGACGCGCCGGAAACC > minE/663660‑663772
|
| 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
