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 |
|
A1 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,759,336 |
C→T |
42.7% |
T45I (ACA→ATA) |
yfjJ → |
hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,759,336 | 0 | C | T | 42.7%
| 37.2
/ 91.1
| 75 | T45I (ACA→ATA) | yfjJ | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (37/6); new base T (18/14); total (55/20) |
| Fisher's exact test for biased strand distribution p-value = 7.37e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.36e-01 |
GACTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTACCAG > W3110S.gb/2759272‑2759402
|
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAg > 1:1306292/1‑67 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:1525920/1‑71 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:518262/1‑71 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:1704968/1‑71 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:451976/1‑71 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:739799/1‑71 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:338685/1‑71 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:3323773/1‑71 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:2741089/1‑71 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaaa > 1:2234735/1‑71 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaa > 1:1438410/1‑70 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaa > 1:670278/1‑70 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaaa > 1:1631425/1‑70 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGaa > 1:204036/1‑69 (MQ=255)
gaCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATAGATATAGaaa > 1:606121/1‑70 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGCTACAGaaaa < 1:340176/70‑1 (MQ=255)
aCTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGaaaa < 1:1127443/70‑1 (MQ=255)
aaCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTc < 1:1600772/70‑1 (MQ=255)
aaCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTc < 1:2850647/70‑1 (MQ=255)
aCTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTc < 1:216950/69‑1 (MQ=255)
cAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAatat > 1:504541/1‑49 (MQ=255)
cAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAatat > 1:1532636/1‑49 (MQ=255)
cAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAatat > 1:764484/1‑49 (MQ=255)
cAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAatat > 1:1321093/1‑49 (MQ=255)
cAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAatat > 1:1252759/1‑49 (MQ=255)
cAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAatat > 1:2200984/1‑49 (MQ=255)
aaTGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAcc < 1:96288/69‑1 (MQ=255)
tGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTct < 1:2423777/64‑2 (MQ=255)
tGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:1680633/64‑1 (MQ=255)
tGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:1733339/64‑1 (MQ=255)
tGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:2256324/64‑1 (MQ=255)
tGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:1891764/64‑1 (MQ=255)
tGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:1941414/64‑1 (MQ=255)
tGATTCTACGTGTTGATCTGCATGACCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:2521494/64‑1 (MQ=255)
ttCTACGTGTTGATCTGCATGACCCAATTGATATAGa < 1:3031819/37‑1 (MQ=255)
ttCTACGTGTTGATCTGCATGACCCAATTGATATAGa < 1:998564/37‑1 (MQ=255)
ttCTACGTGTTGATCTGCATGACCCAATTGATATAGa < 1:728182/37‑1 (MQ=255)
ttCTACGTGTTGATCTGCATGACCCAATTGATATAGa < 1:1733194/37‑1 (MQ=255)
ttCTACGTGTTGATCTGCATGACCCAATTGATATAGa < 1:453340/37‑1 (MQ=255)
ttCTACGTGTTGATCTGCATGACCCAATTGATATAGa < 1:2373676/37‑1 (MQ=255)
cTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGa > 1:2504686/1‑71 (MQ=255)
cTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGa > 1:2603289/1‑71 (MQ=255)
cTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGa > 1:356979/1‑71 (MQ=255)
cTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGa > 1:2766162/1‑71 (MQ=255)
cTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGa > 1:283477/1‑71 (MQ=255)
gtTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTgg > 1:2078388/1‑71 (MQ=255)
gtTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTgg > 1:1877586/1‑71 (MQ=255)
gtTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTgg > 1:2789237/1‑71 (MQ=255)
gtTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTgg > 1:895543/1‑71 (MQ=255)
gATCTGCATGTCCCAATTGATATAGAAAATATGGATAACCCATTCTTTCa < 1:839518/50‑1 (MQ=255)
cATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAc > 1:1957104/1‑46 (MQ=255)
cATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAc > 1:2154270/1‑46 (MQ=255)
cATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAc > 1:2825053/1‑46 (MQ=255)
cATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAc > 1:2044445/1‑46 (MQ=255)
cATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAc > 1:2675975/1‑46 (MQ=255)
cATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAc > 1:368886/1‑46 (MQ=255)
cATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAc > 1:2189354/1‑46 (MQ=255)
cATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAc > 1:2228758/1‑46 (MQ=255)
cATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAAc > 1:1595940/1‑46 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAgg > 1:1369229/1‑40 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:2088786/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:1573236/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:1191266/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:2193312/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:523400/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:2088276/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:493607/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:42913/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:1094809/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:2573234/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCta > 1:246781/1‑56 (MQ=255)
tGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGGCTCTGGTGCt > 1:3264079/1‑55 (MQ=255)
gATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTACCAg > 1:1726328/1‑71 (MQ=255)
gATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTACCAg > 1:3033476/1‑71 (MQ=255)
gATATAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTACCAg > 1:2891457/1‑71 (MQ=255)
|
GACTCCCTAAACGAACATCTTAACTCAATGATTCTACGTGTTGATCTGCATGACCCAATTGATACAGAAAATATGGATAACCCATTCTTTCAACCCAGGGTTGACTCTGGTGCTATATCTCGCTTTACCAG > W3110S.gb/2759272‑2759402
|
| 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
