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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,439,444 |
G→A |
25.6% |
Y286Y (TAC→TAT) |
ompC ← |
outer membrane porin protein C |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,439,444 | 0 | G | A | 25.6%
| 238.0
/ 68.7
| 117 | Y286Y (TAC→TAT) | ompC | outer membrane porin protein C |
| Reads supporting (aligned to +/- strand): ref base G (39/48); new base A (14/16); total (53/64) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.47e-01 |
Only 100 of 124 total aligned reads displayed.
GCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTACGCGAGTTGCGTTGT > minE/1439375‑1439514
|
gCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTgg < 1:5365246/70‑1 (MQ=255)
gCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTgg < 1:4766235/70‑1 (MQ=255)
gCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTgg < 1:2769725/70‑1 (MQ=255)
aCGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACt > 1:4915708/1‑71 (MQ=255)
aGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAAc < 1:5095140/71‑1 (MQ=255)
ttttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCt > 1:5083192/1‑71 (MQ=255)
tttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGc < 1:5545305/63‑1 (MQ=255)
tttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCtt > 1:3856771/1‑71 (MQ=255)
tttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCtt > 1:359277/1‑71 (MQ=255)
tttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCt < 1:1406890/70‑1 (MQ=255)
tttACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCt < 1:2948643/70‑1 (MQ=255)
tACCTTTAGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACt > 1:4142245/1‑57 (MQ=12)
tACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCaa > 1:5181823/1‑63 (MQ=255)
tACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTc < 1:4635071/70‑1 (MQ=255)
aCCTTTAGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACtt > 1:3224646/1‑68 (MQ=18)
aCCTTTAGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTca < 1:1537705/70‑2 (MQ=18)
aCCTTTAGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTca < 1:2125179/70‑2 (MQ=18)
aCCTTTAGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTc > 1:207291/1‑69 (MQ=18)
aCCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCg < 1:2820980/70‑1 (MQ=255)
aCCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCg > 1:3167355/1‑70 (MQ=255)
aCCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCg < 1:492745/70‑1 (MQ=255)
aCCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCg < 1:229860/70‑1 (MQ=255)
cTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAg > 1:1664479/1‑71 (MQ=255)
ttAGATTGCAGGTAAGCGATGGCCGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTCAAAGtt > 1:2825957/1‑71 (MQ=16)
ttAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGATGTCGAACTGGTACTGAGCAACAGCTTCGAAGtt > 1:2920638/1‑71 (MQ=255)
ttAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGtt > 1:1420880/1‑71 (MQ=255)
ttAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGt > 1:640514/1‑70 (MQ=255)
tAGATTGCAGGTAGGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTCAAAGt < 1:676837/69‑1 (MQ=12)
tAGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTCAAAGtt < 1:3856330/70‑1 (MQ=16)
tAGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTCAAAGtt < 1:4497202/70‑1 (MQ=16)
tAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGtt < 1:4315465/70‑1 (MQ=255)
aGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATa > 1:2225626/1‑48 (MQ=2)
aGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATa > 1:2729144/1‑48 (MQ=2)
aGATTGCAGGTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTCAAAGttt < 1:1728506/70‑2 (MQ=12)
aGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGtttt > 1:4744142/1‑69 (MQ=17)
aGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTc < 1:3576373/70‑1 (MQ=255)
gACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCt < 1:2782426/70‑1 (MQ=255)
cTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtgtg < 1:839806/71‑1 (MQ=255)
cAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCtt < 1:3774929/71‑1 (MQ=255)
ggTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCt < 1:1927208/68‑1 (MQ=255)
ggTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTg < 1:5580003/71‑1 (MQ=255)
gTAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTc < 1:1866340/54‑1 (MQ=9)
gTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtg < 1:4573596/63‑1 (MQ=255)
gTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtg < 1:4577851/63‑1 (MQ=255)
gTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtg < 1:5203468/63‑1 (MQ=255)
gTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtg < 1:978039/63‑1 (MQ=255)
tAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGtt < 1:1279895/71‑1 (MQ=12)
tAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGtt < 1:212433/71‑1 (MQ=12)
tAAGCGATGGACGGGCGCAGGCCAAAGTCGAACTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGtt < 1:5201831/71‑1 (MQ=12)
tAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtg < 1:5024250/62‑1 (MQ=255)
tAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGtt < 1:4205124/71‑1 (MQ=255)
aaGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACa > 1:741568/1‑47 (MQ=255)
aaGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGc > 1:3181866/1‑49 (MQ=255)
aaGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTc > 1:2164181/1‑71 (MQ=255)
aGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCg > 1:3673739/1‑71 (MQ=255)
aGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCg > 1:5202142/1‑71 (MQ=255)
cAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGcc > 1:4290362/1‑70 (MQ=255)
aGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCa < 1:3738549/71‑1 (MQ=255)
gggACGGACGCAGACCGAAGTCTAACTGGTACTGAGCAAc < 1:279155/40‑1 (MQ=255)
gggACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAAc < 1:1054902/40‑1 (MQ=255)
gggACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAAc < 1:5607030/40‑1 (MQ=255)
gggACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAAc < 1:4756293/40‑1 (MQ=255)
gggACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCt < 1:1573870/54‑1 (MQ=255)
ggacggacGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGtt < 1:525522/51‑1 (MQ=255)
gacggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAAcc < 1:888507/71‑1 (MQ=255)
acggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCa < 1:5427483/67‑1 (MQ=255)
acggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCa < 1:4511539/67‑1 (MQ=255)
acggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAAccc < 1:477419/71‑1 (MQ=255)
acggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAAccc < 1:1827755/71‑1 (MQ=255)
cggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGcc < 1:5247982/64‑1 (MQ=255)
ggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtg < 1:5569083/50‑1 (MQ=255)
ggacgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAg < 1:5348626/71‑1 (MQ=255)
acgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAggg < 1:4695601/71‑1 (MQ=255)
acgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAggg < 1:515938/71‑1 (MQ=255)
acgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAggg < 1:4712528/71‑1 (MQ=255)
acgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAggg < 1:4631618/71‑1 (MQ=255)
cgCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCtg > 1:2599974/1‑47 (MQ=255)
aCCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGcc > 1:2363513/1‑55 (MQ=255)
aCCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGc > 1:3203689/1‑54 (MQ=255)
aCCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCt > 1:1518147/1‑70 (MQ=255)
aCCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTa > 1:2885762/1‑71 (MQ=255)
cGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTAcg > 1:2961451/1‑71 (MQ=255)
gAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTAcgc < 1:5295041/71‑1 (MQ=255)
gAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTAcgc < 1:1203482/71‑1 (MQ=255)
aaGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTAcgcg < 1:2877821/71‑1 (MQ=255)
aaGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTAcgcg < 1:2871320/71‑1 (MQ=255)
aaGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTAcgc > 1:309436/1‑70 (MQ=255)
aaGTCGAACTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGtt > 1:1954970/1‑47 (MQ=19)
tCGAACTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGt < 1:4932016/43‑1 (MQ=16)
cGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTACGCGAGtt > 1:4982332/1‑71 (MQ=255)
gAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTACGCGAGtt > 1:5099683/1‑70 (MQ=255)
gAACTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGttag > 1:263830/1‑42 (MQ=12)
gAACTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGttag > 1:4403302/1‑42 (MQ=12)
gAACTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGttag > 1:5417320/1‑42 (MQ=12)
aaCTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTACGCGAGTTGc > 1:3425462/1‑71 (MQ=255)
aCTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTACGCGAGTTGCg > 1:964801/1‑71 (MQ=255)
aCTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGTTAGc < 1:2531925/43‑1 (MQ=12)
aCTGATACTGAGCAACAACTTCAAAGTTTTGGGTTTTGTTAGc < 1:5258728/43‑1 (MQ=12)
cTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTACGCGa > 1:667362/1‑64 (MQ=255)
ggTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGt > 1:260644/1‑36 (MQ=255)
|
GCCACGACCCAGGTTTTTACCTTTAGACTGCAGGTAAGCCAGGGACGGACGCAGACCGAAGTCGAACTGGTACTGAGCAACAGCTTCGAAGTTCTGTGCTTTGTTCGCCCAACCCAGGGAACCTACGCGAGTTGCGTTGT > minE/1439375‑1439514
|
| 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
