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 |
548,052 |
C→T |
36.7% |
H391H (CAC→CAT) |
ybiT → |
fused predicted transporter subunits and ATP‑binding components of ABC superfamily |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 548,052 | 0 | C | T | 36.7%
| 34.8
/ 31.9
| 57 | H391H (CAC→CAT) | ybiT | fused predicted transporter subunits and ATP‑binding components of ABC superfamily |
| Reads supporting (aligned to +/- strand): ref base C (28/8); new base T (8/13); total (36/21) |
| Fisher's exact test for biased strand distribution p-value = 4.32e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCGGACAGCGGCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAGTGGAAGCAGGAAGGCG > minE/547989‑548116
|
aCCGGACAGCGGCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAat > 1:996400/1‑68 (MQ=255)
aCCGGACAGCGGCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAat > 1:2711408/1‑68 (MQ=255)
aCCGGACAGCGGCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAat > 1:2386573/1‑68 (MQ=255)
aCCGGACAGCGGCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAat > 1:2332840/1‑68 (MQ=255)
aCCGGACAGCGGCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAat > 1:2199537/1‑68 (MQ=255)
aCCGGACAGCGGCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAat > 1:907626/1‑68 (MQ=255)
aCCGGACAGCGGCACCGTAAAATGGGCTGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGaa > 1:1777992/1‑67 (MQ=255)
ggCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGaa < 1:1578945/69‑1 (MQ=255)
gCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGaa < 1:147478/68‑1 (MQ=255)
cGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGa < 1:565340/69‑1 (MQ=255)
cTGAGAACGCGCGCATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCgtg < 1:2507351/68‑1 (MQ=255)
cTGAGAACGCGCGCATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCgtg < 1:2432672/68‑1 (MQ=255)
cTGAGAACGCGCGCATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCgtg < 1:1041959/68‑1 (MQ=255)
cTGAGAACGCGCGCATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCgtg < 1:2819744/68‑1 (MQ=255)
tGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:496673/52‑1 (MQ=255)
tGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:2673709/52‑1 (MQ=255)
tGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:685610/52‑1 (MQ=255)
tGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:946176/52‑1 (MQ=255)
tGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:2224282/52‑1 (MQ=255)
tGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:3363391/52‑1 (MQ=255)
tGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:1840407/52‑1 (MQ=255)
tGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:526454/52‑1 (MQ=255)
tGAGAACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:1515548/52‑1 (MQ=255)
agaACGCGCGCATTGGTTACTACGCCCAGTACCATGAATATGAGTTCGaa < 1:2755516/50‑1 (MQ=25)
agaACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:2842147/50‑1 (MQ=255)
agaACGCGCGCATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:153281/50‑1 (MQ=255)
gcgcgcATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATgg < 1:804114/69‑1 (MQ=255)
cgcgcATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATgg > 1:3177855/1‑68 (MQ=255)
cgcgcATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATgg > 1:3216270/1‑68 (MQ=255)
cgcgcATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATgg > 1:344198/1‑68 (MQ=255)
cgcgcATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATgg > 1:583532/1‑68 (MQ=255)
cgcgcATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATgg > 1:2336788/1‑68 (MQ=255)
cgcgcATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATgg > 1:1397716/1‑68 (MQ=255)
cATTGGTTACTACGCCCAGGACCATGAATATGAGTTCGaa < 1:1722129/40‑1 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATTAGTTTGAAAATGATCTGAcc > 1:1803526/1‑48 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCg > 1:2319037/1‑49 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAg > 1:574017/1‑69 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAg > 1:713353/1‑69 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAg > 1:78299/1‑69 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAg > 1:91978/1‑69 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAg > 1:2701799/1‑69 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAg > 1:449855/1‑69 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAg > 1:1817240/1‑69 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAg > 1:1295238/1‑69 (MQ=255)
ggTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAg > 1:1223567/1‑69 (MQ=255)
cTCAGGACCATGAATATGAGTTTGAAAATGATCTGACCGTGTTCg > 1:234811/1‑45 (MQ=255)
cTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCg > 1:3097152/1‑45 (MQ=255)
cTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCg > 1:303606/1‑45 (MQ=255)
cTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCg > 1:2709711/1‑45 (MQ=255)
cTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCg > 1:939211/1‑45 (MQ=255)
cTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCg > 1:977920/1‑45 (MQ=255)
cTCAGGACAACGAATATGAGTTTGAAAATGATCTGACCGTGTTCg > 1:3335119/1‑45 (MQ=255)
atCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCg > 1:1967808/2‑45 (MQ=255)
aCCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAGTGGAAGCAGGAAGGCg > 1:1013128/1‑69 (MQ=255)
aCCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAGTGGAAGCAGGAAGGCg > 1:1716708/1‑69 (MQ=255)
aCCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAGTGGAAGCAGGAAGGCg > 1:1061148/1‑69 (MQ=255)
aCCACGAATATGAGTTTGAAAAAGATCTGACCGTGTTCGAATGGATGAGCCAGt > 1:1015325/1‑54 (MQ=255)
|
ACCGGACAGCGGCACCGTAAAATGGTCTGAGAACGCGCGCATTGGTTACTATGCTCAGGACCACGAATATGAGTTTGAAAATGATCTGACCGTGTTCGAATGGATGAGCCAGTGGAAGCAGGAAGGCG > minE/547989‑548116
|
| 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
