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 |
2,619,872 |
G→T |
49.2% |
G289G (GGC→GGA) |
zntA ← |
zinc, cobalt and lead efflux system |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,619,872 | 0 | G | T | 49.2%
| 10.1
/ 74.3
| 69 | G289G (GGC→GGA) | zntA | zinc, cobalt and lead efflux system |
| Reads supporting (aligned to +/- strand): ref base G (9/26); new base T (5/29); total (14/55) |
| Fisher's exact test for biased strand distribution p-value = 3.71e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.76e-01 |
TCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCGGCAGGCA > minE/2619810‑2619933
|
tCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTc < 1:1068257/69‑1 (MQ=255)
tCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTc < 1:2913402/69‑1 (MQ=255)
tCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTc < 1:2435162/69‑1 (MQ=255)
tCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTc < 1:319047/69‑1 (MQ=255)
tCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTc < 1:3364528/69‑1 (MQ=255)
tCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTc < 1:501203/69‑1 (MQ=255)
tCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTc < 1:689045/69‑1 (MQ=255)
tCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTc < 1:1574109/69‑1 (MQ=255)
tCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCGCCACCGGAATGGATTCGCCGGTc < 1:3148425/69‑1 (MQ=255)
cTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTc < 1:1167199/68‑1 (MQ=255)
agcagGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCaaa < 1:1534129/69‑1 (MQ=255)
gcagGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTtc > 1:2844619/1‑62 (MQ=255)
gcagGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTtc > 1:2040703/1‑62 (MQ=255)
gcagGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTtc > 1:1987590/1‑62 (MQ=255)
gcagGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTtc > 1:972884/1‑62 (MQ=255)
gcagGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCaaa < 1:2707471/68‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:553/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:2722409/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:1127068/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:2428265/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:3240369/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:1423827/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:2370303/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:2156101/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:1497406/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:797352/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:1747799/53‑1 (MQ=255)
gaaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:44217/53‑1 (MQ=255)
aaCTTTATCGCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACt < 1:623287/53‑1 (MQ=255)
ttATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCaaa > 1:1971098/1‑59 (MQ=255)
ttATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCaaa > 1:171027/1‑59 (MQ=255)
ttATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCaaa > 1:1117767/1‑59 (MQ=255)
gCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGt > 1:378190/1‑67 (MQ=255)
gCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGt > 1:2901632/1‑67 (MQ=255)
gCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGt > 1:2567298/1‑67 (MQ=255)
gCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGt > 1:193431/1‑67 (MQ=255)
gCCCGTCGCGCGCTCCACAGGAATGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGt > 1:1485231/1‑67 (MQ=255)
cGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGagag < 1:88372/69‑1 (MQ=255)
cGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGagag < 1:2902593/69‑1 (MQ=255)
cGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGagag < 1:430527/69‑1 (MQ=255)
cGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGagag < 1:2562924/69‑1 (MQ=255)
cGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGagag < 1:2616733/69‑1 (MQ=255)
cGTTGCGCGCTCCACCGGAATGGATTCGCAGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGagag < 1:1515002/69‑1 (MQ=255)
gTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCGAACGGTGagag < 1:995350/68‑1 (MQ=255)
gTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGagag < 1:1551781/68‑1 (MQ=255)
gTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGagag < 1:500317/68‑1 (MQ=255)
ttGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGAGAGCa < 1:2530106/69‑1 (MQ=255)
ttGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGAGAGCa < 1:1512228/69‑1 (MQ=255)
ttGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGAGAGCa < 1:1061026/69‑1 (MQ=255)
ttGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGAGAGCa < 1:1654969/69‑1 (MQ=255)
ttGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGAGAGCa < 1:1653409/69‑1 (MQ=255)
ccGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACg > 1:422820/1‑48 (MQ=255)
ggAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggca > 1:203154/1‑69 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:2793601/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:1182814/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:709151/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:614518/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:430511/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:213215/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:2385166/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:3362658/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:2387657/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:320614/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:2400269/69‑1 (MQ=255)
tGGATTCTCCGGTCAGGGCACTTTCATCAAAACTAGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:760532/69‑1 (MQ=255)
ggATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:1634369/68‑1 (MQ=255)
ggATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:565594/68‑1 (MQ=255)
ggATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:75477/68‑1 (MQ=255)
ggATTCTCCGGTCAGGGCACTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCggcaggca < 1:1079775/68‑1 (MQ=255)
|
TCTACGCTGGTGGCACCAGCAGGGACTTTATCGCCCGTTGCGCGCTCCACCGGAATGGATTCGCCGGTCAGGGCGCTTTCATCAAAACTGGCAAACGGTGAGAGCAGTTTACCGTCGGCAGGCA > minE/2619810‑2619933
|
| 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
