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 |
1,524,808 |
C→A |
52.0% |
V189L (GTA→TTA) |
yfcJ ← |
predicted transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,524,808 | 0 | C | A | 52.0%
| ‑1.4
/ 90.5
| 73 | V189L (GTA→TTA) | yfcJ | predicted transporter |
| Reads supporting (aligned to +/- strand): ref base C (9/26); new base A (15/23); total (24/49) |
| Fisher's exact test for biased strand distribution p-value = 2.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.08e-01 |
GCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCA > minE/1524759‑1524872
|
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTgtggtg < 1:456956/69‑1 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTgtggtg < 1:2327818/69‑1 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAgg > 1:1836110/1‑52 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTa > 1:341945/1‑55 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:643693/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:2740386/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:1955249/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:74986/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:1467661/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:818854/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:1376443/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:329928/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:3407431/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:2225111/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:876530/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:523422/1‑69 (MQ=255)
gCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTAAGGGTAATGCCATTgtggtg > 1:2294517/1‑69 (MQ=255)
aCTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGc > 1:1719329/1‑68 (MQ=255)
aCTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGc > 1:573995/1‑68 (MQ=255)
aCTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGc > 1:543424/1‑68 (MQ=255)
aCTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGc > 1:2736595/1‑68 (MQ=255)
tGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTgtggt > 1:868366/1‑52 (MQ=255)
tGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCaa > 1:886128/1‑69 (MQ=255)
tGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCaa > 1:1159716/1‑69 (MQ=255)
tGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCaa > 1:315549/1‑69 (MQ=255)
tGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCaa > 1:1217630/1‑69 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:3237713/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:1115368/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:2271000/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:2162214/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:2313088/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:2054488/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:464076/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:3072062/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:2404191/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:690444/69‑1 (MQ=255)
cTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:301375/69‑1 (MQ=255)
cTGTGCCGTAACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGt < 1:2038910/69‑1 (MQ=255)
gtgCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCaaa < 1:193489/62‑1 (MQ=255)
gtgCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCaaa < 1:122541/62‑1 (MQ=255)
gTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:1703169/68‑1 (MQ=255)
gTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:36994/68‑1 (MQ=255)
gTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:1168355/68‑1 (MQ=255)
gTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:858895/68‑1 (MQ=255)
gTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:1268736/68‑1 (MQ=255)
gTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:1496220/68‑1 (MQ=255)
gTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:1673372/68‑1 (MQ=255)
gTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:2931143/68‑1 (MQ=255)
gTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:1783030/68‑1 (MQ=255)
ttACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGc < 1:2539593/67‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:745721/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:557377/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:706657/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:658395/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:2274082/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:2964725/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:1175901/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:1210673/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:1224998/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:145531/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:1552615/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:1694601/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:1755998/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:185659/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:1977183/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:2062857/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:2091464/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:2105658/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:226710/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:2379799/69‑1 (MQ=255)
aGTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:45183/69‑1 (MQ=255)
gTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:1012181/68‑1 (MQ=255)
gTAAGGGTAATGCCATTGTGGTGAGCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCa < 1:1104699/68‑1 (MQ=255)
|
GCCAGGGCCGGTACTTTGCGCACTGTGCCGTTACAGGCCCACGCCAGTACGGGTAATACCATTGTGGTGATCGCCAGTGCGGCAAAACCGTAATGGCTATGAATCAACAGGCCA > minE/1524759‑1524872
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
