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 |
1,259,087 |
C→T |
51.5% |
V613I (GTT→ATT) |
torZ ← |
trimethylamine N‑oxide reductase system III, catalytic subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,259,087 | 0 | C | T | 51.5%
| ‑3.3
/ 59.3
| 66 | V613I (GTT→ATT) | torZ | trimethylamine N‑oxide reductase system III, catalytic subunit |
| Reads supporting (aligned to +/- strand): ref base C (22/10); new base T (15/19); total (37/29) |
| Fisher's exact test for biased strand distribution p-value = 5.16e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.11e-01 |
TCAATTTTGCCGCTTGGCGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTTGCTGCCAGAAGGCA > minE/1259020‑1259148
|
tCAATTTTGCCGCTTGGCGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATaacgaacg < 1:2247200/69‑1 (MQ=255)
tCAATTTTGCCGCTTGGCGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATaacgaacg < 1:1073316/69‑1 (MQ=255)
tCAATTTTGCCGCTTGGCGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATaacgaacg < 1:110280/69‑1 (MQ=255)
tCAATTTTGCCGCTTGGCGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATaacgaacg < 1:898785/69‑1 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:1743041/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:2540112/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:1525375/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:39912/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:2540795/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:2785550/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:2561814/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:239270/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:2021248/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:1197792/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:2837589/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:816802/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:2566909/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGTACTgttcgtt > 1:2694245/1‑69 (MQ=255)
gCTTGGTGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAATGGACTgttcgtt > 1:721456/1‑69 (MQ=255)
cTTGGCGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTgttcgttc < 1:2630839/69‑1 (MQ=255)
cTTGGCGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTgttcgttc < 1:1592379/69‑1 (MQ=255)
cTTGGCGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTgttcgttc < 1:1261402/69‑1 (MQ=255)
tttCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCAttt > 1:1163259/1‑68 (MQ=255)
tttCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTc > 1:2707620/1‑69 (MQ=255)
tttCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTc > 1:779789/1‑69 (MQ=255)
tttCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTc > 1:1413419/1‑69 (MQ=255)
tttCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTc > 1:2395457/1‑69 (MQ=255)
tttCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTc > 1:12444/1‑69 (MQ=255)
tttCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTc > 1:2040808/1‑69 (MQ=255)
tCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCg < 1:2612020/68‑1 (MQ=255)
gATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGtt < 1:2301606/69‑1 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa > 1:3185817/1‑69 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa > 1:96087/1‑69 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa > 1:955412/1‑69 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa > 1:1069335/1‑69 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa > 1:1344535/1‑69 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa < 1:1424469/69‑1 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa < 1:1762605/69‑1 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa > 1:2539304/1‑69 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa < 1:1975907/69‑1 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa < 1:2460424/69‑1 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa > 1:2044770/1‑69 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa > 1:2897839/1‑69 (MQ=255)
tCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTa > 1:2962352/1‑69 (MQ=255)
ggCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTAtt > 1:3258766/1‑69 (MQ=255)
ggCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTAtt > 1:2582671/1‑69 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:369634/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:2784943/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:70588/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:341818/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:3141247/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:3210926/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:1047101/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:2523774/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:146820/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:2466853/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:2000979/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:2363116/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:2351227/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:229388/44‑1 (MQ=255)
aaaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:1105687/44‑1 (MQ=255)
aaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:2907213/43‑1 (MQ=255)
aaTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:2135067/43‑1 (MQ=255)
aTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:1571136/42‑1 (MQ=255)
aTCACCATAACGAATGTACTGTTCGTTCTTCTCGCTgcggcg < 1:2317191/42‑1 (MQ=255)
aTAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTTGCTGCCAGAAGGc > 1:3051617/1‑69 (MQ=255)
aTAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTTGCTGCCAGAAGGc > 1:3225519/1‑69 (MQ=255)
aTAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTTGCTGCCAGAAGGc > 1:2883303/1‑69 (MQ=255)
aTAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTTGCTGCCAGAAGGc > 1:2517065/1‑69 (MQ=255)
tAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTTGCTGCCAGAAGGCa < 1:1106456/69‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:1018446/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:872272/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:1067751/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:76336/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:2603409/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:1886305/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:1896246/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:2000824/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:355038/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:336176/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:2111448/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:2152040/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:2818982/53‑1 (MQ=255)
cgTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTtgctgc < 1:2568762/53‑1 (MQ=255)
|
TCAATTTTGCCGCTTGGCGTACCCAGCGCATTTTTCACCGGATCGGCGCGGAAATCACCATAACGAACGTACTGTTCGTTCTTCTCGCTGTGGCGCATTTCGATCAGTTTATTTTGCTGCCAGAAGGCA > minE/1259020‑1259148
|
| 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
