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 |
|
A3 F2 I1 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
Exported |
218,030 |
A→G |
73.7% |
Y6C (TAC→TGC) |
yafF → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | Exported | 218,030 | 0 | A | G | 73.7%
| 326.1
/ 126.4
| 201 | Y6C (TAC→TGC) | yafF | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (28/25); new base G (98/50); total (126/75) |
| Fisher's exact test for biased strand distribution p-value = 9.86e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.99e-01 |
Only 100 of 201 total aligned reads displayed.
CCGAAACCACTGGCACGTGGAGAATAAGCTGCACAGGCGTCTGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTT > Exported/217962‑218096
|
ccGAAACCACTGGCACGTGGAGAATAAGCTGCACAGGCGTCTGGACGTGGTAATGAATGAAGACGACTAc > 1:3945071/1‑70 (MQ=255)
cGAAACCACTGGCACGTGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCa > 1:3648158/1‑70 (MQ=255)
aaaCCACTGGCACGTGGAGAATAAGCTGCACAGGCGTCTGGACGTGGTAATGAATGAAGACGACTACaaaa > 1:1000416/1‑71 (MQ=255)
atcACTGGCACGTGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAAt > 1:4553976/3‑70 (MQ=255)
aCCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCaaaa > 1:716916/1‑69 (MQ=39)
aCCACTGGCATGTGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAAt > 1:4678397/1‑70 (MQ=255)
gTGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGaaa > 1:5445949/1‑71 (MQ=255)
tGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGaaat > 1:3074972/1‑70 (MQ=255)
tGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGaaat > 1:4662215/1‑70 (MQ=255)
tGGAGAATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGa < 1:4260102/68‑1 (MQ=255)
gagaATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGaaatg > 1:3893140/1‑68 (MQ=255)
gagaATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGaaatg > 1:5649601/1‑68 (MQ=255)
gagaATAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAACg > 1:4017662/1‑70 (MQ=255)
aaTAAGCTGCACAGGCGTCTGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACgcag > 1:311949/1‑70 (MQ=255)
tAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATaa > 1:1531927/1‑53 (MQ=255)
tAAGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATaa > 1:3849266/1‑53 (MQ=255)
aGCTGCACTGGCGTCTGGGCGTGGTAATGAATGAAGACGACTGCAAAAt > 1:3687921/1‑49 (MQ=38)
aGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATaag > 1:5621552/1‑52 (MQ=255)
aGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATaa > 1:2125525/1‑51 (MQ=255)
aGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGaaatg > 1:103484/1‑61 (MQ=255)
aGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGaaatg > 1:1722551/1‑61 (MQ=255)
aGCTGCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGaa > 1:183671/1‑71 (MQ=255)
aGCTGCACAGGCGTCTGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGaa > 1:3431688/1‑71 (MQ=255)
tGCACAGGCGTCTGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAatta > 1:702751/1‑71 (MQ=255)
agCACTGGCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAatt > 1:2921597/2‑70 (MQ=255)
actggCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAACGCCGCAGAATTAttt > 1:2476369/4‑71 (MQ=255)
ctggCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGTAAATGCAGCAGAATTAtttt > 1:379680/3‑71 (MQ=255)
ctggCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTAtttt > 1:2305285/3‑71 (MQ=255)
caGGCGTCTGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTAtttt < 1:261775/71‑1 (MQ=255)
caGGCGTCTGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTAtttt < 1:4452388/71‑1 (MQ=255)
caGGCGGCTGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAAGAgg < 1:381832/51‑1 (MQ=255)
tggCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGa < 1:1621040/50‑1 (MQ=255)
gCGTCTGGACGTGGTAATGAATGAAGACGACTGCaaa > 1:4178891/1‑37 (MQ=255)
gCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAg > 1:4531804/1‑71 (MQ=255)
gCGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAg > 1:3619865/1‑71 (MQ=255)
cGTCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGaaa > 1:3002787/1‑50 (MQ=255)
cGTCTGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCAgg < 1:3748484/71‑1 (MQ=255)
tCTGGACGTGGTAATGAATGAAGACGACTGCAAAATaag < 1:872150/39‑1 (MQ=255)
tCTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAatta > 1:2613107/1‑61 (MQ=255)
cTGGACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGa > 1:3031516/1‑70 (MQ=255)
tGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAagag > 1:4237334/1‑42 (MQ=255)
ggACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGaa < 1:3307548/55‑1 (MQ=255)
gACGTGGTATTGAATGAAGACGACTGCAAAATAAGAAGAGGa < 1:1100447/42‑1 (MQ=38)
gACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGa > 1:1587740/1‑67 (MQ=255)
gACGTGGTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGa > 1:4419242/1‑67 (MQ=255)
tGGTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCAGGGATACGGca > 1:1214694/1‑70 (MQ=255)
ggTAATGAATGAAGACGACTGCAAAATAAGAAGAGGaaa > 1:2072664/1‑39 (MQ=255)
ggTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGcaca > 1:3224214/1‑71 (MQ=255)
gTAATGAATGAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACAt > 1:5314869/1‑71 (MQ=255)
gTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCa > 1:5633730/1‑57 (MQ=255)
gTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCAGGGATACGGCACAt > 1:5524303/1‑71 (MQ=255)
gTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCAGGGATACGGCACAt > 1:2329927/1‑71 (MQ=255)
tattgattgaaGACGACTGCAAAATAAGTAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGcaca < 1:3340743/66‑1 (MQ=255)
tAATGAATGAAGACGACTGCAAAATAAGAAGAGGa > 1:1373102/1‑35 (MQ=255)
aatgaatgAAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGcaca > 1:90337/1‑68 (MQ=255)
aatgaatgAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTAtttt < 1:1145339/53‑1 (MQ=255)
atgaatgaAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCa > 1:1223351/1‑54 (MQ=39)
atgaatgaAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACgg > 1:2680293/1‑63 (MQ=255)
atgaatgaAGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACAtt > 1:4311200/1‑69 (MQ=255)
atgaatgaAGACGACTGCAAAATAAGAAGAGGAAACGCCGCAGAATTATTTTCAGGGATACGGCACATCGc > 1:4188913/1‑71 (MQ=255)
tgagtgaaGACGACTGCAAAATAAGAAGAGGAAACGCCGCAGAATTATTTTCAGGGATACGGCACATCGc > 1:4580661/1‑70 (MQ=255)
gaatgaaGACGACTGCAAAATAAGAAGAGGAAACGCCGCAGAATTAtttt > 1:2553238/1‑50 (MQ=255)
aatgaaGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCa > 1:580294/1‑51 (MQ=39)
aatgaaGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTAt > 1:5424152/1‑71 (MQ=255)
aatgaaGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAattat > 1:4847072/1‑46 (MQ=255)
ttgatgaCGACTGCAAAATAAGAAGAGGAAATgca < 1:412162/34‑1 (MQ=21)
atgaaGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTAtttt < 1:1299706/48‑1 (MQ=38)
atgaaGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTAttt < 1:4750907/47‑1 (MQ=38)
atgaaGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAg > 1:479685/1‑51 (MQ=39)
atgaaGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCa > 1:5344283/1‑50 (MQ=255)
tgaaGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTAt > 1:4403200/1‑69 (MQ=255)
tgaaGACGACCGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTAtt > 1:5295270/1‑70 (MQ=255)
caaGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTAtttt < 1:3349400/45‑1 (MQ=255)
aaGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTaa > 1:4026744/1‑70 (MQ=255)
aaGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTaa > 1:4932436/1‑70 (MQ=255)
cgacgacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTaa < 1:2274405/68‑1 (MQ=255)
acacgacTGCAAAATAAGAAGAGGAAACGCCGCAGAATTAtttt < 1:5632639/42‑1 (MQ=38)
aGACGACTGCAAAATAAGAAGAGGAAATGcagcag < 1:2019559/35‑1 (MQ=25)
aGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAatt < 1:2441357/39‑1 (MQ=37)
aGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTc < 1:2969280/45‑1 (MQ=38)
aGACGACTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTAtt < 1:5099815/67‑1 (MQ=255)
aGACGACTGCAAAATAAGAAGAGGAAACGCCGCAGAatt < 1:2166000/39‑1 (MQ=37)
aGACGACTGCAAAATAAGAAGAGGAAACGCCGCAGAATTAtttt < 1:2795275/44‑1 (MQ=38)
aGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAatt < 1:3176870/39‑1 (MQ=255)
aGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAata < 1:2389810/71‑1 (MQ=255)
gacgacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGa < 1:831704/49‑1 (MQ=38)
acgacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGa < 1:3765346/48‑1 (MQ=38)
acgacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGa < 1:2519896/48‑1 (MQ=38)
acgacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGca < 1:3524767/55‑1 (MQ=255)
acgacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATAtt > 1:450137/1‑71 (MQ=255)
acgaaTGCAAAATAAGAAGAGGAAATGCAGCAGAATTAttt < 1:5676934/41‑1 (MQ=25)
cgacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTAtttt < 1:408413/41‑1 (MQ=38)
cgacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGa < 1:5400852/47‑1 (MQ=38)
cgacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGca < 1:2262752/54‑1 (MQ=39)
gacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTAttt < 1:1357884/39‑1 (MQ=37)
gacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCa > 1:3481111/1‑42 (MQ=38)
gacTGCAAAATAAGAAGAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATAtttt < 1:2239943/71‑1 (MQ=255)
gacTACAAAATAAGAAGAGGAAACGCAGCAGAATTAtttt < 1:3239038/40‑1 (MQ=255)
gacTACAAAATAAGAAGAGGAAACGCAGCAGAATTAtttt < 1:149770/40‑1 (MQ=255)
gacTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATAtttt < 1:2872822/71‑1 (MQ=255)
|
CCGAAACCACTGGCACGTGGAGAATAAGCTGCACAGGCGTCTGGACGTGGTAATGAATGAAGACGACTACAAAATAAGAAGAGGAAACGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAATATTTT > Exported/217962‑218096
|
| 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
