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 |
2,546,283 |
G→A |
34.7% |
P88P (CCC→CCT) |
rfaF ← |
ADP‑heptose:LPS heptosyltransferase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,546,283 | 0 | G | A | 34.7%
| 70.2
/ 50.5
| 92 | P88P (CCC→CCT) | rfaF | ADP‑heptose:LPS heptosyltransferase II |
| Reads supporting (aligned to +/- strand): ref base G (45/15); new base A (20/12); total (65/27) |
| Fisher's exact test for biased strand distribution p-value = 2.36e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
GCGCCAGCCGGTGCGATGAGGAATACCCGCGAAGAAAGGCACTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTGCGGCGTTCGCCGA > minE/2546220‑2546350
|
gcgcCAGCCGGTGCGATGAGGAATACCCGCGAAGAAAGGCACTAATGCAGATTTGAAGGAGTTGGGTaa < 1:3280237/69‑1 (MQ=255)
cgcCAGCCGGTGCGATGAGGAATACCCGCGAAGAAAGGCACTAATGCAGATTTGAAGGAGTTGGGTaa < 1:1359888/68‑1 (MQ=255)
cgcCAGCCGGTGCGATGAGGAATACCCGCGAAGAAAGGCACTAATGCAGATTTGAAGGAGTTGGGTaa < 1:566884/68‑1 (MQ=255)
cgcCAGCCGGTGCGATGAGGAATACCCGCGAAGAAAGGCACTAATGCAGATTTGAAGGAGTTGGGTaa < 1:764030/68‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:2963775/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:1319167/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:3141597/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:3198593/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:1438866/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:364733/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:2495443/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:2304610/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:444313/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:1672431/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:2282985/69‑1 (MQ=255)
cGATGAGGAATACCTGCGAAGAAAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCgg < 1:2067576/69‑1 (MQ=255)
cGATGAGGAATACCCGCGAAGAAAGGCACTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCgg > 1:1230937/1‑69 (MQ=255)
cGATGAGGAATACCCGCGAAGAAAGGCACTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCgg > 1:2260415/1‑69 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGt > 1:1005668/1‑36 (MQ=37)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:2203896/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:2791755/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:284598/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:2044317/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:2054081/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:1999762/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:1974624/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:1330160/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:1348814/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:833241/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:158937/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:88031/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:926960/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:1619191/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:725203/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:699127/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:533359/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:1917978/1‑54 (MQ=255)
aagaaAGGCACTAATGCGGATTTGAAGGAGTTAGGTAAGACGTAGGCGCGGTCg > 1:1156576/1‑54 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGTTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:2684642/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:2949247/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:2913724/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:288970/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg < 1:3028320/59‑1 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:2871446/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg < 1:3216906/59‑1 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:3402219/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:3429566/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg < 1:359074/59‑1 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg < 1:624099/59‑1 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:499897/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:496065/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:1070667/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:1716011/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:2380837/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:2123785/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:193456/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:1735420/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:2649284/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:1646361/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:2703432/1‑59 (MQ=255)
aCTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:2804313/1‑59 (MQ=255)
tAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGgcg < 1:1162615/37‑1 (MQ=255)
aaTGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg < 1:3044803/56‑1 (MQ=255)
aaTGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:3129661/1‑56 (MQ=255)
aaTGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:1582359/1‑56 (MQ=255)
aaTGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg > 1:1235809/1‑56 (MQ=255)
aaTGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg < 1:1778541/56‑1 (MQ=255)
aaTGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg < 1:325003/56‑1 (MQ=255)
aaTGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg < 1:3301110/56‑1 (MQ=255)
aaTGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACg < 1:957984/56‑1 (MQ=255)
aaTGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGAccc > 1:3235742/1‑69 (MQ=255)
tGCAGATTTGAATGAGTTGGGTAAGACGTATGAGCGGTCGTAGCGCTTTTCACg < 1:982532/54‑1 (MQ=255)
ctgATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGc > 1:2842140/3‑57 (MQ=255)
cAGATTTGAAGGAGTTGGGTAAGACGTAGTCGCGGTCGTAgcgc > 1:2139303/1‑44 (MQ=255)
cAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGtt > 1:3242670/1‑69 (MQ=255)
cAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGtt > 1:2866412/1‑69 (MQ=255)
cAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGtt > 1:2556052/1‑69 (MQ=255)
cAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGtt > 1:1938144/1‑69 (MQ=255)
cAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGtt > 1:2366402/1‑69 (MQ=255)
gATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAgcg > 1:2683426/1‑41 (MQ=255)
gATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTg > 1:3130233/1‑69 (MQ=255)
gATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTg > 1:2786731/1‑69 (MQ=255)
gATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTg > 1:2803945/1‑69 (MQ=255)
gATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTg > 1:2514640/1‑69 (MQ=255)
tGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGc > 1:3245345/1‑51 (MQ=255)
tGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGc > 1:1836428/1‑51 (MQ=255)
tGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGc > 1:2417865/1‑51 (MQ=255)
tGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACTCAGGCTATGACCCAGTTTGCGGCGTTCGCGGa > 1:456584/1‑69 (MQ=255)
tGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTGCGGCGTTCGCCGa > 1:1897913/1‑69 (MQ=255)
tGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTGCGGCGTTCGCCGa > 1:538073/1‑69 (MQ=255)
tGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTGCGGCGTTCGCCGa > 1:925910/1‑69 (MQ=255)
tGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTGCGGCGTTCGCCGa > 1:2884779/1‑69 (MQ=255)
|
GCGCCAGCCGGTGCGATGAGGAATACCCGCGAAGAAAGGCACTAATGCAGATTTGAAGGAGTTGGGTAAGACGTAGGCGCGGTCGTAGCGCTTTTCACGCAGGCTATGACCCAGTTTGCGGCGTTCGCCGA > minE/2546220‑2546350
|
| 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
