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 |
1,610,811 |
T→C |
75.7% |
A309A (GCA→GCG) |
eutB ← |
ethanolamine ammonia‑lyase, large subunit, heavy chain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,610,811 | 0 | T | C | 75.7%
| 60.2
/ 13.7
| 49 | A309A (GCA→GCG) | eutB | ethanolamine ammonia‑lyase, large subunit, heavy chain |
| Reads supporting (aligned to +/- strand): ref base T (3/9); new base C (27/10); total (30/19) |
| Fisher's exact test for biased strand distribution p-value = 5.46e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.16e-01 |
CCCAATAAAGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGCTTCCATCGTTACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCAGAGCCT > minE/1610745‑1610868
|
cccAATAAAGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGc < 1:3223212/69‑1 (MQ=255)
cccAATAAAGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGc < 1:1384579/69‑1 (MQ=255)
aTAAAGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGCTTcc < 1:1321671/69‑1 (MQ=255)
aTAAAGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGCTTcc < 1:2477137/69‑1 (MQ=255)
aTAAAGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGCTTcc < 1:75602/69‑1 (MQ=255)
aTAAAGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGCTTcc < 1:2684976/69‑1 (MQ=255)
aTAAAGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGAGCCAGCCCGTAGTTACGTGCTTcc < 1:683911/69‑1 (MQ=255)
aaaGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGCTTCCAt > 1:155800/1‑69 (MQ=255)
ccGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGCTTCCATCGtt < 1:1421681/69‑1 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACgcgc > 1:1754852/1‑54 (MQ=39)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:3043036/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:3079836/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:3084160/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:935278/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:3101975/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:3186863/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:2750238/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:3238181/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:3238756/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:3373576/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:462461/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:478603/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:485650/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:75769/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:87071/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:1915916/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:1588458/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:151187/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:1812826/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:1353427/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:2157595/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:2199918/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:2463733/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:2521271/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:261473/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:2664175/1‑63 (MQ=255)
cACGGTGTTGACGATAAACGGATAGTAATGACGCGCCAGCCCATAGTTACGCGCTTCCATCGtc > 1:804558/1‑63 (MQ=255)
gACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGCTTCCATCGTTACCTGGTCTgcgc > 1:1860391/1‑68 (MQ=255)
aTGACGCGCCAGCCCGTAGTTACGTGCTTCCATCGTTACCTGGTCTGCGCCGAAGTTAGCGCCAGCg > 1:1194767/1‑67 (MQ=255)
gcgcCAGCCCGTAGTTACGTGCTTCCATCGTTACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAgcg < 1:1401353/69‑1 (MQ=255)
ccatAGTTACGCGCTTCCATCGTCACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCCGAGCCt < 1:377378/66‑1 (MQ=255)
ccatAGTTACGCGCTTCCATCGTCACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCCGAGCCt < 1:850400/66‑1 (MQ=255)
ccatAGTTACGCGCTTCCATCGTCACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCCGAGCCt < 1:161320/66‑1 (MQ=255)
ccatAGTTACGCGCTTCCATCGTCACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCCGAGCCt < 1:476155/66‑1 (MQ=255)
ccatAGTTACGCGCTTCCATCGTCACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCCGAGCCt < 1:45491/66‑1 (MQ=255)
ccatAGTTACGCGCTTCCATCGTCACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCCGAGCCt < 1:273543/66‑1 (MQ=255)
ccatAGTTACGCGCTTCCATCGTCACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCCGAGCCt < 1:3332596/66‑1 (MQ=255)
ccatAGTTACGCGCTTCCATCGTCACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCCGAGCCt < 1:1862668/66‑1 (MQ=255)
catAGTTACGCGCTTCCATCGTCACCTGGTCTGCCCCGAAGTTAGCCCCAGCGGATAGCGCCGAGCCt < 1:2992850/66‑1 (MQ=255)
catAGTTACGCGCTTCCATCGTCAACTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCCGAGCCt < 1:1449643/66‑1 (MQ=255)
|
CCCAATAAAGCCGACCACGGTGTTGACGATAAACGGATCGTAATGACGCGCCAGCCCGTAGTTACGTGCTTCCATCGTTACCTGGTCTGCGCCGAAGTTAGCGCCAGCGGATAGCGCAGAGCCT > minE/1610745‑1610868
|
| 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
