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 |
528,660 |
C→T |
36.1% |
T98T (ACG→ACA) |
ybhN ← |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 528,660 | 0 | C | T | 36.1%
| 36.6
/ 32.0
| 58 | T98T (ACG→ACA) | ybhN | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (23/14); new base T (7/14); total (30/28) |
| Fisher's exact test for biased strand distribution p-value = 5.52e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.07e-01 |
CAACCCCAGACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTGGCGCTTCGCCAGTTTGTGAC > minE/528600‑528724
|
cAACCCCAGACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGt > 1:2931676/1‑68 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGt > 1:165983/1‑60 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGt > 1:1969600/1‑69 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGt > 1:2917398/1‑69 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGt > 1:3167137/1‑69 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGt > 1:3355994/1‑69 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGt > 1:2363009/1‑69 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGt > 1:732151/1‑69 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGt > 1:1662065/1‑69 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGt > 1:1524660/1‑69 (MQ=255)
gACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGt > 1:981758/1‑69 (MQ=255)
gagTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCa < 1:3390623/68‑1 (MQ=255)
gagTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCa < 1:906110/68‑1 (MQ=255)
gagTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCa < 1:1432893/68‑1 (MQ=255)
gagTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCa < 1:2398113/68‑1 (MQ=255)
gagTACAAACGATAGCGCATAACAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCa < 1:538444/68‑1 (MQ=255)
agTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCa < 1:2089984/67‑1 (MQ=255)
tACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATa < 1:1293443/69‑1 (MQ=255)
tACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATa < 1:1412232/69‑1 (MQ=255)
tACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATa < 1:397178/69‑1 (MQ=255)
tACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATa < 1:2754722/69‑1 (MQ=255)
tACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATa < 1:522225/69‑1 (MQ=255)
tACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATa < 1:874771/69‑1 (MQ=255)
tACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATa < 1:1643152/69‑1 (MQ=255)
tACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATa < 1:1609766/69‑1 (MQ=255)
aCAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATa > 1:1733817/1‑68 (MQ=255)
cAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATaa > 1:984349/1‑68 (MQ=255)
aaCGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAAc < 1:27100/68‑1 (MQ=255)
aaCGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAAc < 1:518557/68‑1 (MQ=255)
aaCGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAAc < 1:1726542/68‑1 (MQ=255)
aCGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGa < 1:950910/69‑1 (MQ=255)
aCGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGa < 1:2652091/69‑1 (MQ=255)
aCGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGa < 1:1430977/69‑1 (MQ=255)
cGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGac < 1:372888/69‑1 (MQ=255)
cGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGac < 1:3357152/69‑1 (MQ=255)
cGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGac > 1:1202780/1‑69 (MQ=255)
cGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGac < 1:1217616/69‑1 (MQ=255)
cGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGac < 1:1398014/69‑1 (MQ=255)
cGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGac < 1:2453994/69‑1 (MQ=255)
cGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGac > 1:1938707/1‑69 (MQ=255)
cGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGac < 1:2168850/69‑1 (MQ=255)
ccAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCAcc > 1:2831653/1‑69 (MQ=255)
ccAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCAcc > 1:2550851/1‑69 (MQ=255)
aTGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATAAACGACTCCAGCATCACCTgg > 1:225107/1‑69 (MQ=255)
aTGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTgg > 1:3111794/1‑69 (MQ=255)
aTGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTgg > 1:1917833/1‑69 (MQ=255)
aTGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTgg > 1:1986507/1‑69 (MQ=255)
aTGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTgg > 1:2255311/1‑69 (MQ=255)
aTGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTgg > 1:2343929/1‑69 (MQ=255)
aTGCCGCCGACCCAGGTACTGAGTGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTg > 1:3380469/1‑68 (MQ=255)
ccgccgACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTGgcgc > 1:593264/1‑69 (MQ=255)
ccgccgACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTGgcgc > 1:2945436/1‑69 (MQ=255)
cgACCCAGGTACTTAGCGTCAGGTTGAAGGCGTAGCAGATAAAc < 1:641173/44‑1 (MQ=255)
gTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTGGCGCTTCGCCAGtt < 1:1451688/67‑1 (MQ=255)
gAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCAt > 1:2097351/1‑42 (MQ=255)
gAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTGGCGCTTCGCCAGTTTGTGAc > 1:504036/1‑68 (MQ=255)
gAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTGGCGCTTCGCCAGTTTGTGAc > 1:1011873/1‑68 (MQ=255)
gAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAACATCACCTGGCGCTTCGCCAGTTTGTGAc > 1:3307228/1‑68 (MQ=255)
|
CAACCCCAGACGAGAGTACAAACGATAGCGCATACCAATGCCGCCGACCCAGGTACTGAGCGTCAGGTTGAAGGCGTAGCAGATAAACGACACCAGCATCACCTGGCGCTTCGCCAGTTTGTGAC > minE/528600‑528724
|
| 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
