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 F3 I0 R2
|
88 |
130.8 |
6963722 |
93.6% |
6518043 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,763,636 |
A→G |
17.3% |
noncoding (208/1542 nt) |
rrsG ← |
16S ribosomal RNA |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,763,636 | 0 | A | G | 17.3%
| 227.0
/ 41.7
| 98 | noncoding (208/1542 nt) | rrsG | 16S ribosomal RNA |
| Reads supporting (aligned to +/- strand): ref base A (36/45); new base G (12/5); total (48/50) |
| Fisher's exact test for biased strand distribution p-value = 6.37e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.62e-01 |
Only 100 of 104 total aligned reads displayed.
GCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAT > minE/1763567‑1763705
|
gCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGaa < 1:5597178/70‑1 (MQ=255)
gCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg > 1:801649/1‑71 (MQ=255)
gCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg < 1:736644/71‑1 (MQ=255)
gCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg > 1:2116537/1‑71 (MQ=255)
gttggtggggtaacggctctccaaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGt > 1:4753940‑M2/25‑71 (MQ=255)
ttggtggggtaacggctcaccaaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTc > 1:4061089‑M2/24‑71 (MQ=255)
ttggtggggtaacggctcaccaaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTc > 1:6139877‑M2/24‑71 (MQ=255)
TTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg < 1:4056081‑M1/68‑1 (MQ=255)
TTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg < 1:6420567‑M1/68‑1 (MQ=255)
TTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg < 1:5211833‑M1/68‑1 (MQ=255)
TTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg < 1:1269480‑M1/68‑1 (MQ=255)
TTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAg < 1:230057‑M1/68‑1 (MQ=255)
GGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccc < 1:5186271‑M1/71‑1 (MQ=255)
GTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccc > 1:6786038‑M1/1‑70 (MQ=255)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGaa > 1:2208239/1‑61 (MQ=40)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctc > 1:4959065/1‑71 (MQ=255)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctc > 1:5119212/1‑71 (MQ=255)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCctc > 1:6550657/1‑71 (MQ=255)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCct < 1:400937/70‑1 (MQ=255)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTccc > 1:2451989/1‑67 (MQ=40)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCGCct < 1:4594601/70‑1 (MQ=255)
aGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCct < 1:3468332/70‑1 (MQ=40)
ccGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCtt < 1:5204161/71‑1 (MQ=255)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTg > 1:5002111/1‑71 (MQ=255)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTg > 1:4572443/1‑71 (MQ=255)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTg > 1:2862609/1‑71 (MQ=255)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTg < 1:3646992/71‑1 (MQ=39)
gTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTg < 1:864607/71‑1 (MQ=39)
ttACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTgg > 1:5841430/1‑71 (MQ=39)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGt < 1:642248/70‑1 (MQ=255)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTc > 1:3004064/1‑71 (MQ=255)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTc > 1:1976476/1‑71 (MQ=255)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGt < 1:5514979/70‑1 (MQ=40)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGt < 1:3522141/70‑1 (MQ=40)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTc > 1:2040840/1‑71 (MQ=39)
aCCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTc > 1:2167128/1‑71 (MQ=39)
ccccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCt < 1:5144198/71‑1 (MQ=39)
cccACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCt < 1:4949350/70‑1 (MQ=40)
caccaaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTc > 1:3474528‑M2/7‑67 (MQ=255)
accaaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCg < 1:4844489‑M2/66‑1 (MQ=255)
ccaaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGaa > 1:2257199‑M2/5‑48 (MQ=255)
ccaaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGaa > 1:6426969‑M2/5‑48 (MQ=255)
caaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGCGAc > 1:4582595‑M2/4‑71 (MQ=255)
caaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCACCTCTTTGGTCTTGc > 1:1956287‑M2/4‑68 (MQ=255)
aaCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCt < 1:364118‑M2/62‑1 (MQ=255)
aCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGCGa < 1:6848400‑M2/67‑1 (MQ=255)
aCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAGGGTCCCCCTCTTTGGTCTTGCGa < 1:2058613‑M2/67‑1 (MQ=255)
aCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:3600293‑M2/70‑1 (MQ=255)
aCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:5827897‑M2/70‑1 (MQ=255)
aCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt > 1:2967874‑M2/2‑71 (MQ=255)
aCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:3381385‑M2/70‑1 (MQ=255)
aCAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:3761682‑M2/70‑1 (MQ=255)
caaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAtt < 1:2248209/71‑1 (MQ=38)
caaGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt > 1:5443131/1‑70 (MQ=37)
gatAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATg < 1:3337342/69‑1 (MQ=21)
gCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATg < 1:797245/71‑1 (MQ=34)
tAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCg > 1:151066/1‑71 (MQ=34)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:2003736/1‑62 (MQ=31)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:900833/1‑62 (MQ=31)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:5285351/1‑62 (MQ=31)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:5279141/1‑62 (MQ=31)
aTCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg < 1:6588579/70‑1 (MQ=35)
ccATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTAtt < 1:5293048/71‑1 (MQ=34)
ccATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTAt < 1:5288614/70‑1 (MQ=35)
tCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGt < 1:1830012/65‑1 (MQ=35)
cTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGc > 1:3339360/1‑70 (MQ=35)
tGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:2117387/1‑60 (MQ=35)
tGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:3654497/1‑60 (MQ=35)
tGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:2591598/1‑60 (MQ=35)
tGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTa > 1:4359207/1‑71 (MQ=34)
acaTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGtt < 1:1992679/71‑1 (MQ=34)
aTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:4144498/48‑1 (MQ=35)
aTCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:6674689/48‑1 (MQ=35)
tCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:6610230/47‑1 (MQ=35)
tCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:4353704/47‑1 (MQ=35)
tCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:6291518/47‑1 (MQ=35)
tCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:544000/47‑1 (MQ=35)
tCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTa > 1:803421/1‑49 (MQ=38)
ccGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACAt < 1:3305356/46‑1 (MQ=35)
cGATGGCAAGAGGCCCGAAGGTCCACCTCTTTGGTCTTGCGACATTATGCGGTATTa < 1:181476/57‑1 (MQ=255)
gATGGCAAGAGGCCCGAATGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTa > 1:2237041/1‑56 (MQ=255)
gATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTa > 1:1751539/1‑56 (MQ=35)
ggCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:5028103/1‑40 (MQ=33)
ggCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACa > 1:3157910/1‑40 (MQ=33)
gCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg < 1:1744428/47‑1 (MQ=38)
gCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg < 1:2252863/47‑1 (MQ=38)
cAAGACGCCCGAAGGGCCCCCTCTTTGGTCTTGCGACAt < 1:2183756/39‑1 (MQ=11)
aaGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGc > 1:4058435/1‑43 (MQ=38)
agagGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGttt > 1:491836/1‑59 (MQ=35)
gCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATccccc > 1:1318083/1‑71 (MQ=34)
gCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATccccc > 1:239395/1‑71 (MQ=34)
gCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATcccc > 1:5612629/1‑70 (MQ=35)
ccGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg < 1:6373311/38‑1 (MQ=40)
ccGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg < 1:1896628/38‑1 (MQ=40)
ccGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCgg < 1:5643427/38‑1 (MQ=40)
ccGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTc < 1:3232421/71‑1 (MQ=34)
ccGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTc > 1:4405309/1‑71 (MQ=34)
ccGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTc > 1:606269/1‑71 (MQ=34)
aaGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAt < 1:1911191/71‑1 (MQ=34)
aaGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAt > 1:5834363/1‑71 (MQ=34)
|
GCCTTGGTGAGCCGTTACCCCACCAACAAGCTAATCCCATCTGGGCACATCCGATGGCAAGAGGCCCGAAGGTCCCCCTCTTTGGTCTTGCGACATTATGCGGTATTAGCTACCGTTTCCAGTAGTTATCCCCCTCCAT > minE/1763567‑1763705
|
| 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
