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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
837,036 |
A→G |
24.9% |
S73S (TCA→TCG) |
narJ → |
molybdenum‑cofactor‑assembly chaperone subunit (delta subunit) of nitrate reductase 1 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 837,036 | 0 | A | G | 24.9%
| 97.5
/ 33.2
| 62 | S73S (TCA→TCG) | narJ | molybdenum‑cofactor‑assembly chaperone subunit (delta subunit) of nitrate reductase 1 |
| Reads supporting (aligned to +/- strand): ref base A (19/27); new base G (7/8); total (27/35) |
| Fisher's exact test for biased strand distribution p-value = 7.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.74e-01 |
ACGACGATGGATCCGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCG > minE/836968‑837105
|
acgacgATGGATCCGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCAc < 1:1792229/70‑1 (MQ=255)
tCCGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGttt > 1:1243331/1‑70 (MQ=255)
tCCGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTg < 1:3830050/71‑1 (MQ=255)
tCCGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTg < 1:2925923/71‑1 (MQ=255)
cGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGaa < 1:4486640/71‑1 (MQ=255)
cGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGaa < 1:2634176/71‑1 (MQ=255)
gCTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGaa < 1:3021745/70‑1 (MQ=255)
cTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTg < 1:3730991/60‑1 (MQ=255)
cTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTg < 1:3115401/60‑1 (MQ=255)
cTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGaa < 1:679740/69‑1 (MQ=255)
cTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACa < 1:5285151/71‑1 (MQ=255)
gATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACAtgt > 1:4743326/1‑71 (MQ=255)
cccAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCa < 1:5129755/70‑1 (MQ=255)
cccAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCa < 1:2142867/70‑1 (MQ=255)
ccAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACg > 1:4304606/1‑71 (MQ=255)
ccAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACg < 1:3982208/71‑1 (MQ=255)
cAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCAc > 1:528943/1‑69 (MQ=255)
cAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCAc > 1:1774486/1‑69 (MQ=255)
cAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACgg > 1:4123467/1‑71 (MQ=255)
cAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACgg > 1:5328383/1‑71 (MQ=255)
ggCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCg < 1:1142602/71‑1 (MQ=255)
gcgcAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCg > 1:1429854/1‑70 (MQ=255)
gcgcAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCg > 1:1968832/1‑70 (MQ=255)
cAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATc < 1:3038748/71‑1 (MQ=255)
cAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATc < 1:1273041/71‑1 (MQ=255)
tACAGCGAACTGTTCGACCGTGGCCGCTCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCcg > 1:5331585/1‑71 (MQ=255)
aCAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCcgc > 1:4351798/1‑71 (MQ=255)
cAGCGAACTGTTCGACCGTGGCCGCGCCACGTCAc > 1:487399/1‑35 (MQ=255)
cAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACt > 1:5232874/1‑36 (MQ=255)
cAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCcgc < 1:3180810/70‑1 (MQ=255)
cAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCcgc < 1:4655449/70‑1 (MQ=255)
cAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCcgc > 1:3275029/1‑70 (MQ=255)
cAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCcgc > 1:1954183/1‑70 (MQ=255)
gCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTg < 1:5411941/45‑1 (MQ=255)
gAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCcgc < 1:3267845/66‑1 (MQ=255)
aaCTGTTCGACCGTGGCCGCGCCACGTCACTGTTg < 1:4796508/35‑1 (MQ=255)
gTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGt < 1:2861544/35‑1 (MQ=255)
ttCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGa > 1:2390564/1‑38 (MQ=255)
ttCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGa > 1:3726861/1‑62 (MQ=255)
ttCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGa > 1:1313003/1‑62 (MQ=255)
gACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGc < 1:347441/71‑1 (MQ=255)
gACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGAACGCGGCCAGGc < 1:5569837/71‑1 (MQ=255)
aCCGCGGGCGCACCACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGc < 1:248931/70‑1 (MQ=255)
ccGCGGGCGCACCACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGcaa < 1:4219983/71‑3 (MQ=255)
ccGCGGGCGCACCACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGcaa < 1:2033718/71‑3 (MQ=255)
gTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGAtg < 1:3691372/71‑1 (MQ=255)
gCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGAtggt < 1:1477056/70‑1 (MQ=255)
gcgcaCCACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAAtggtgg < 1:4929275/70‑1 (MQ=255)
gcgcaCCACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAAtggtgg < 1:2844976/70‑1 (MQ=255)
cgcgCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCg > 1:4555090/1‑40 (MQ=255)
ccACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACct > 1:5264352/1‑70 (MQ=255)
cACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAAtgttgg < 1:5638980/65‑1 (MQ=255)
cACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAAtggtgg < 1:4664664/65‑1 (MQ=255)
cACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAAtgg > 1:3892172/1‑62 (MQ=255)
cACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACctgc > 1:3472542/1‑71 (MQ=255)
cACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACctgc > 1:4472078/1‑71 (MQ=255)
cACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACctgc > 1:2444782/1‑71 (MQ=255)
cACGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACctgc > 1:4174436/1‑71 (MQ=255)
cACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGAtggtgg < 1:3683966/65‑1 (MQ=255)
aCGTCCCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGcaa > 1:3736215/1‑56 (MQ=255)
cGTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGCAATGGTGGACctgctg > 1:3029830/1‑71 (MQ=255)
gTCGCTGCTGCTGTTCGAACATGTTCATGCCGAGTCCCGCGATCGCGGCCAGGc < 1:5464509/54‑1 (MQ=255)
aCTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGc < 1:900444/51‑1 (MQ=255)
aCTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGgcg > 1:4511865/1‑70 (MQ=255)
|
ACGACGATGGATCCGCTCGATGCCCAGGCGCAGTACAGCGAACTGTTCGACCGTGGCCGCGCCACGTCACTGTTGCTGTTTGAACATGTGCACGGCGAATCCCGCGACCGCGGCCAGGCGATGGTGGACCTGCTGGCG > minE/836968‑837105
|
| 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
