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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,487,535 |
G→A |
31.2% |
P329S (CCT→TCT) |
valS ← |
valyl‑tRNA synthetase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,487,535 | 0 | G | A | 31.2%
| 67.0
/ 38.1
| 48 | P329S (CCT→TCT) | valS | valyl‑tRNA synthetase |
| Reads supporting (aligned to +/- strand): ref base G (15/18); new base A (11/4); total (26/22) |
| Fisher's exact test for biased strand distribution p-value = 1.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAAGCGCGTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGAACACCTGGGCGCTTTCACG > W3110S.gb/4487466‑4487598
|
cAAGCGCGTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAgg > 1:1249551/1‑70 (MQ=255)
cAAGCGCGTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAgg > 1:1473346/1‑70 (MQ=255)
cAAGCGCGTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAgg > 1:4043490/1‑70 (MQ=255)
aaGCGCGTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGa > 1:4801934/1‑71 (MQ=255)
aaGCGCGTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGa < 1:3054709/71‑1 (MQ=255)
cgcgTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGAttt > 1:464834/1‑71 (MQ=255)
cgcgTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGAttt > 1:2760022/1‑71 (MQ=255)
gTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGAGAt < 1:70261/66‑1 (MQ=255)
cAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTg > 1:2702261/1‑71 (MQ=255)
aaCTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTgg < 1:3007193/71‑1 (MQ=255)
aaCTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTg > 1:533317/1‑70 (MQ=255)
cTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTc < 1:996433/64‑1 (MQ=255)
cTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTc < 1:4669880/64‑1 (MQ=255)
gCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGc > 1:2701600/1‑64 (MQ=255)
cGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAAt < 1:1096857/69‑1 (MQ=255)
cGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTAGAACTCTGCAGGGATTTCGCTGGAATag < 1:3217378/71‑2 (MQ=255)
ggCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGAGATTTCGCTg < 1:3232393/64‑1 (MQ=255)
cAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGAGATTTCGCTGGa > 1:4584715/1‑64 (MQ=255)
cAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGAGATTTCGCTGGa > 1:1093327/1‑64 (MQ=255)
cAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGAGATTTCGCTGGa > 1:2145555/1‑64 (MQ=255)
cGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCa < 1:1682725/71‑1 (MQ=255)
gACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGt > 1:1542561/1‑68 (MQ=255)
gACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGt > 1:3090748/1‑68 (MQ=255)
gACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGAGATTTCGCTGGAATAAACGt > 1:3927870/1‑68 (MQ=255)
gACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGAGATTTCGCTGGAATAAACGt > 1:1546655/1‑68 (MQ=255)
gACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGAGATTTCGCTGGAATAAACGTCAg < 1:716535/71‑1 (MQ=255)
gACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGAGATTTCGCTGGAATAAACGTCAg < 1:2808773/71‑1 (MQ=255)
cTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCg > 1:4836699/1‑71 (MQ=255)
tACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATag < 1:3436659/56‑2 (MQ=255)
cagcaAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCttt < 1:475206/70‑1 (MQ=255)
cagcaAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCttt < 1:4574832/70‑1 (MQ=255)
cagcaAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCttt < 1:4580768/70‑1 (MQ=255)
aaaaCGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGAtt > 1:591419/1‑56 (MQ=255)
aaaCGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCttt < 1:2596800/65‑1 (MQ=255)
aaaCGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCttt < 1:1652156/65‑1 (MQ=255)
aaaCGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATc > 1:130215/1‑71 (MQ=255)
aaaCGCTCCAGTTGCTGGAACTCTGCAGAGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATc > 1:1491662/1‑71 (MQ=255)
gCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGAac < 1:2538235/71‑1 (MQ=255)
tCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTc < 1:3584136/44‑1 (MQ=255)
ccAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCg > 1:946262/1‑50 (MQ=255)
cAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCATATTCGTTACCTTTGGTATCGAacac < 1:1740994/69‑1 (MQ=255)
cAGTTTCTGGAACTCTGCAGAGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGAACACCt > 1:4152233/1‑71 (MQ=255)
cAGTTTCTGGAACTCTGCAGAGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGAACACCt > 1:922695/1‑71 (MQ=255)
ttCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGAACACCTGGgc > 1:1511275/1‑71 (MQ=255)
ggAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGAac > 1:3879471/1‑59 (MQ=255)
gAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGAACACCTGGGCGCt < 1:2870868/69‑1 (MQ=255)
tGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGAACACCTGGGCGCTTTCACg < 1:1443783/69‑1 (MQ=255)
gCAGGGATTTCGCTGGAATAAACGTCAGATTCGtt > 1:439594/1‑35 (MQ=255)
cAGAGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGaa > 1:4900065/1‑49 (MQ=255)
cAGAGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGaa > 1:1342705/1‑49 (MQ=255)
cAGAGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGaa > 1:227296/1‑49 (MQ=255)
|
CAAGCGCGTCAACTGCGGCAACGACTGCTTTACGTGCAGCAAAACGCTCCAGTTTCTGGAACTCTGCAGGGATTTCGCTGGAATAAACGTCAGATTCGTTACCTTTGGTATCGAACACCTGGGCGCTTTCACG > W3110S.gb/4487466‑4487598
|
| 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
