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 |
2,071,466 |
T→C |
32.7% |
N429N (AAT→AAC) |
ygjG → |
putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,071,466 | 0 | T | C | 32.7%
| 48.3
/ 32.1
| 64 | N429N (AAT→AAC) | ygjG | putrescine:2‑oxoglutaric acid aminotransferase, PLP‑dependent |
| Reads supporting (aligned to +/- strand): ref base T (22/21); new base C (7/14); total (29/35) |
| Fisher's exact test for biased strand distribution p-value = 1.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.43e-01 |
AACGAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTGATCAA > minE/2071398‑2071534
|
aaCGAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAAt < 1:613419/69‑1 (MQ=255)
aaCGAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAAt < 1:180272/69‑1 (MQ=255)
aaCGAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAAt < 1:293743/69‑1 (MQ=255)
aaCGAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAAt < 1:146983/69‑1 (MQ=255)
aaCGAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAAt < 1:781849/69‑1 (MQ=255)
aaCGAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAAt < 1:2101472/69‑1 (MQ=255)
aCGAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAAt < 1:1997300/68‑1 (MQ=255)
gAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAAc < 1:1353579/69‑1 (MQ=255)
gAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAAc < 1:1311992/69‑1 (MQ=255)
gAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAAc < 1:2194252/69‑1 (MQ=255)
gAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAAc < 1:2052709/69‑1 (MQ=255)
gAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAAc < 1:103686/69‑1 (MQ=255)
tataACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACg < 1:146647/69‑1 (MQ=255)
tataACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACg < 1:3298587/69‑1 (MQ=255)
tataACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACg < 1:319376/69‑1 (MQ=255)
tataACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACg < 1:1728540/69‑1 (MQ=255)
tataACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACg < 1:1792116/69‑1 (MQ=255)
aCTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATc > 1:923113/1‑68 (MQ=255)
cAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:2188672/68‑1 (MQ=255)
cAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:2011994/68‑1 (MQ=255)
cAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:2329145/68‑1 (MQ=255)
cAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:1863135/68‑1 (MQ=255)
cAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:1612203/68‑1 (MQ=255)
cAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:3259106/68‑1 (MQ=255)
cAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:537244/68‑1 (MQ=255)
cAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:732964/68‑1 (MQ=255)
cAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:827110/68‑1 (MQ=255)
aGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:3083277/67‑1 (MQ=255)
aGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:2291533/67‑1 (MQ=255)
aGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:2508389/67‑1 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCa > 1:579053/1‑61 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:3352268/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:964077/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:842373/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:634993/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:1505064/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:1512116/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:369900/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:3387116/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:2056497/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:3349300/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:1781713/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:1026080/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:2320659/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:2902372/1‑68 (MQ=255)
gagaTGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAAcc > 1:205617/1‑68 (MQ=255)
aTGTTCCGCCAGGGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCca > 1:1446023/1‑69 (MQ=255)
ttCCGCCAGCGCGTACTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:942785/58‑1 (MQ=255)
ccGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCcactgac < 1:714369/69‑1 (MQ=255)
ccGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCcactgac < 1:2991447/69‑1 (MQ=255)
ccGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCcactgac < 1:626131/69‑1 (MQ=255)
gcgcGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCCactgacactgac < 1:1606568/69‑1 (MQ=255)
gcgcGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCCactgacactgac < 1:2866502/69‑1 (MQ=255)
cTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTg > 1:1878232/1‑67 (MQ=255)
cTGGTGGCCGGAACACTCAACAACGCTAAAACGATCCGCATTg < 1:1462862/43‑1 (MQ=37)
ggtggCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAAc < 1:917162/68‑1 (MQ=255)
ggtggCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAAc < 1:1603782/68‑1 (MQ=255)
ggtggCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAAc < 1:3070554/68‑1 (MQ=255)
gCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCG‑CACTGACACTGACCATTGAACAGtgtg < 1:2941902/69‑1 (MQ=255)
cGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGtgtg < 1:340585/68‑1 (MQ=255)
cTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:420761/1‑69 (MQ=255)
cTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:2711566/1‑69 (MQ=255)
cTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:1571769/1‑69 (MQ=255)
tCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAAc < 1:2843872/54‑1 (MQ=255)
tCAACAACGCTAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:2353232/1‑68 (MQ=255)
tCAACAACGCTAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:1201321/1‑68 (MQ=255)
tCAACAACGCTAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:884929/1‑68 (MQ=255)
tCAACAACGCTAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:1685649/1‑68 (MQ=255)
tCAACAACGCTAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:1073320/1‑68 (MQ=255)
tCAACAACGCTAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:3046198/1‑68 (MQ=255)
tCAACAACGCTAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTg > 1:2194319/1‑68 (MQ=255)
tAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTGATCaa < 1:618547/69‑1 (MQ=255)
|
AACGAAATCGGCTATAACTTTGCCAGCGAGATGTTCCGCCAGCGCGTACTGGTGGCCGGAACGCTCAATAACGCCAAAACGATCCGCATTGAACCGCCACTGACACTGACCATTGAACAGTGTGAACTGGTGATCAA > minE/2071398‑2071534
|
| 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
