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 |
499,428 |
A→T |
30.7% |
D272E (GAT→GAA) |
modF ← |
fused subunits of molybdate transporter and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 499,428 | 0 | A | T | 30.7%
| 59.9
/ 32.0
| 52 | D272E (GAT→GAA) | modF | fused subunits of molybdate transporter and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base A (20/16); new base T (5/11); total (25/27) |
| Fisher's exact test for biased strand distribution p-value = 1.38e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.86e-01 |
TTGGCCCGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGTGACG > minE/499361‑499493
|
ttGGCCCGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGAt < 1:3009081/69‑1 (MQ=255)
ttGGCCCGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGAt < 1:1224635/69‑1 (MQ=255)
ttGGCCCGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGAt < 1:2810520/69‑1 (MQ=255)
ttGGCCCGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGAt < 1:2335415/69‑1 (MQ=255)
ttGGCCCGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGAt < 1:2326481/69‑1 (MQ=255)
tGGCCCGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGAt < 1:2693659/68‑1 (MQ=255)
cccGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGATCGt < 1:2931611/68‑1 (MQ=255)
cccGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGATCGt < 1:102963/68‑1 (MQ=255)
cccGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGATCGt < 1:2216279/68‑1 (MQ=255)
cccGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGATCGt < 1:3342208/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:3309338/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:2941201/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:2865919/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:2851888/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:3207691/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:2580133/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:577934/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:1868379/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:1519809/68‑1 (MQ=255)
ccAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:584477/68‑1 (MQ=255)
ttCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGATCGTTATAAGAAACCACGCCAtt > 1:1964662/1‑69 (MQ=255)
tGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCa < 1:1515219/56‑1 (MQ=255)
cACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCACGCCATTGTTCAGCACaa > 1:943160/1‑68 (MQ=255)
cACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCACGCCATTGTTCAGCACaa > 1:1139517/1‑68 (MQ=255)
cACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCACGCCATTGTTCAGCACAAt > 1:2536582/1‑69 (MQ=255)
cACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCACGCCATTGTTCAGCACAAt > 1:127817/1‑69 (MQ=255)
cACCTGCCAGCTAAGGTTATTAAGAATGGGGCGTTCGTTATAAGAAACCACGCCATTGTTCAGCACAAt > 1:3129111/1‑69 (MQ=255)
attaAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCgg > 1:1709456/1‑68 (MQ=255)
attaAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCgg > 1:719680/1‑68 (MQ=255)
attaAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCgg > 1:18164/1‑68 (MQ=255)
attaAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCgg > 1:2267626/1‑68 (MQ=255)
attaAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCgg > 1:2842060/1‑68 (MQ=255)
attaAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCgg > 1:941139/1‑68 (MQ=255)
attaAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCgg > 1:1340481/1‑68 (MQ=255)
attaAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCg > 1:2886221/1‑67 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:643890/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:2654820/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:400710/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:2191606/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:2150731/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:1933295/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:1929204/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:1722224/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:1660309/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:1388378/1‑69 (MQ=255)
tGGGGCGATCGTTATAAGAAACCACGACATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGt > 1:165248/1‑69 (MQ=255)
gCGATCGTTATAAGATACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGTGACg < 1:1073557/69‑1 (MQ=255)
gCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGTGACg < 1:2992578/69‑1 (MQ=255)
gCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGTGACg < 1:3180808/69‑1 (MQ=255)
gCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGTGACg < 1:2841230/69‑1 (MQ=255)
gCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGTGACg < 1:3432793/69‑1 (MQ=255)
gCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGTGACg < 1:675538/69‑1 (MQ=255)
|
TTGGCCCGACAATTTGCCAGTGTTCGCCTGGATTCACCTGCCAGCTAAGGTTATTAAGAATGGGGCGATCGTTATAAGAAACCACGCCATTGTTCAGCACAATGCGCGGTTCGTTGGCGGGTAAGGCGTGACG > minE/499361‑499493
|
| 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
