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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,948,123 |
T→C |
33.8% |
T40A (ACC→GCC) |
yjjB ← |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,948,123 | 0 | T | C | 33.8%
| 73.7
/ 59.7
| 65 | T40A (ACC→GCC) | yjjB | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (22/21); new base C (6/16); total (28/37) |
| Fisher's exact test for biased strand distribution p-value = 1.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTTTACCGCCGAAATCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGACCAGCA > minE/2948055‑2948185
|
ttttACCGCCGAAATCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTa > 1:3825701/1‑70 (MQ=255)
ccgccgAAATCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACt < 1:159483/71‑1 (MQ=255)
cgccgAAATCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACt < 1:3044534/70‑1 (MQ=255)
gccgAAATCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACttt > 1:2101633/1‑71 (MQ=255)
gccgAAATCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACttt > 1:2432974/1‑71 (MQ=255)
gccgAAATCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACtt > 1:345474/1‑70 (MQ=255)
aaTCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGAt < 1:1824204/71‑1 (MQ=255)
tCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATgc < 1:11549/71‑1 (MQ=255)
gCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCa < 1:2823278/70‑1 (MQ=255)
ggTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGAt < 1:2269627/71‑1 (MQ=255)
tataAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATAc < 1:3009252/71‑1 (MQ=255)
aGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGa > 1:2110812/1‑55 (MQ=255)
aGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAgc > 1:2315141/1‑71 (MQ=255)
ccGATATGCCCGGGAACATAGGGATGACGGCCGCCACGGCAAACACTTTCGGATGCGCCAGATACCAgcgc > 1:187783/1‑71 (MQ=255)
ccGATATGCCCGGGAACATAGGGATAGCGGCCGCCACGGTAAACACttt > 1:60743/1‑49 (MQ=255)
ccGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACttt > 1:3898108/1‑49 (MQ=255)
ccGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACttt > 1:3699182/1‑49 (MQ=255)
ccGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACttt > 1:3360509/1‑49 (MQ=255)
ccGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGCCAGATACCAgcgc > 1:4011684/1‑71 (MQ=255)
atatGCCCGGGAACATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGCCa < 1:646339/57‑1 (MQ=255)
atatGCCCGGGAACATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGCCa < 1:598439/57‑1 (MQ=255)
atatGCCCGGGAACATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGCCa < 1:2955900/57‑1 (MQ=255)
atGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCa > 1:953412/1‑71 (MQ=255)
tGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCAt < 1:3213613/71‑1 (MQ=255)
tGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCAt < 1:1400295/71‑1 (MQ=255)
tGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCAt < 1:719794/71‑1 (MQ=255)
gCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCAtt > 1:2665559/1‑71 (MQ=255)
gCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGAGACCAtt > 1:2949392/1‑71 (MQ=255)
cccGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCAtt < 1:3380490/70‑1 (MQ=255)
cccGGGAACATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTg < 1:1171236/71‑1 (MQ=255)
ccGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGa < 1:3699965/71‑1 (MQ=255)
ccGGGAACATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTg < 1:1166379/70‑1 (MQ=255)
ggAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATa > 1:3605087/1‑71 (MQ=255)
ggAACATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGcc < 1:1154073/47‑1 (MQ=255)
ggAACATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGcc < 1:911940/47‑1 (MQ=255)
gAACATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGcc < 1:2164667/46‑1 (MQ=255)
aaCATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATAcc < 1:1733726/71‑1 (MQ=255)
aCATAGTGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCa < 1:2635669/71‑1 (MQ=255)
aCATAGGGCTAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCa < 1:4145236/71‑1 (MQ=255)
aCATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCa < 1:2701189/71‑1 (MQ=255)
aCATAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGCCa < 1:115949/45‑1 (MQ=255)
cATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCaa > 1:283662/1‑71 (MQ=255)
aTAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGCCATATACCAGCGCGACCATTGAATACCAAt < 1:1637545/71‑1 (MQ=255)
aTAGGGATAACGGCCGCCACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAAt < 1:2337674/71‑1 (MQ=255)
aTAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTAcc > 1:3042815/1‑71 (MQ=255)
aTAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTAc > 1:3175010/1‑70 (MQ=255)
tAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATAcc < 1:2118135/61‑1 (MQ=255)
tAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATAcc < 1:2426758/61‑1 (MQ=255)
tAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCg < 1:2526961/71‑1 (MQ=255)
aCGGCCGCCACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAAt < 1:4114021/62‑1 (MQ=255)
aCGGCCGCCACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGt > 1:3727008/1‑65 (MQ=255)
aCGGCCGCCACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTa > 1:340326/1‑66 (MQ=255)
ggCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGAc > 1:3697277/1‑69 (MQ=255)
ggCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGAc > 1:2237284/1‑69 (MQ=255)
ggCCGCCACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGAc > 1:3042671/1‑69 (MQ=255)
ccgccACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCaa < 1:1740002/57‑1 (MQ=255)
cgccACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGACCAGCa < 1:2740876/71‑1 (MQ=255)
cgccACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGACCAGCa < 1:1862890/71‑1 (MQ=255)
cgccACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGACCAGCa < 1:538108/71‑1 (MQ=255)
cgccACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGACCAGCa < 1:114952/71‑1 (MQ=255)
gccACGGCAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATg > 1:932892/1‑57 (MQ=255)
cACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCg < 1:3428277/61‑1 (MQ=255)
cGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGAc > 1:531790/1‑61 (MQ=255)
cGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGAc > 1:1258136/1‑61 (MQ=255)
cGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGAc > 1:933366/1‑61 (MQ=255)
|
TTTTACCGCCGAAATCATTGCGGTATAAGCCGATATGCCCGGGAACATAGGGATAACGGCCGCCACGGTAAACACTTTCGGATGCGCCAGATACCAGCGCGACCATTGAATACCAATGGTACCGACCAGCA > minE/2948055‑2948185
|
| 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
