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 |
318,136 |
A→G |
35.0% |
A1044A (GCA→GCG) |
kefA → |
fused mechanosensitive channel proteins |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 318,136 | 0 | A | G | 35.0%
| 49.9
/ 43.9
| 77 | A1044A (GCA→GCG) | kefA | fused mechanosensitive channel proteins |
| Reads supporting (aligned to +/- strand): ref base A (42/8); new base G (9/18); total (51/26) |
| Fisher's exact test for biased strand distribution p-value = 1.24e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGA > minE/318072‑318192
|
tGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCAttt < 1:2349079/68‑1 (MQ=255)
tGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCAttt < 1:1619706/68‑1 (MQ=255)
ggcgACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAg > 1:3388287/1‑69 (MQ=255)
ggcgACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAg > 1:2446637/1‑69 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGt > 1:546831/1‑60 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCAt > 1:2467170/1‑68 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCAt > 1:3371087/1‑68 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCAt > 1:1109070/1‑68 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCAt > 1:620774/1‑68 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATg > 1:1139158/1‑69 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATg > 1:485447/1‑69 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATg > 1:2864621/1‑69 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTCTTC‑TTACGGCATTTGGTGCCAGCACGTTGGATCATGa > 1:3141819/1‑69 (MQ=255)
cAAGGGTGATGCACGAACCAATGCCGGAAGTATTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATg > 1:2093871/1‑69 (MQ=255)
gTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGc > 1:2524855/1‑67 (MQ=255)
gTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCt > 1:798673/1‑68 (MQ=255)
gTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTg > 1:882343/1‑69 (MQ=255)
gTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTg > 1:1671953/1‑69 (MQ=255)
gTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTg > 1:1227181/1‑69 (MQ=255)
gTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTg > 1:458380/1‑69 (MQ=255)
cACGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTg < 1:3172362/69‑1 (MQ=255)
cACGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTg < 1:2613415/69‑1 (MQ=255)
cACGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTg < 1:507087/69‑1 (MQ=255)
cACGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTg < 1:1227523/69‑1 (MQ=255)
aCGAACCAATGCGGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTg < 1:2145059/68‑1 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa > 1:2799488/1‑69 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa > 1:2102143/1‑69 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa > 1:2075036/1‑69 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa > 1:2218161/1‑69 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa > 1:192268/1‑69 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa > 1:3435936/1‑69 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa > 1:2312442/1‑69 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa > 1:1660837/1‑69 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATg < 1:1528429/56‑1 (MQ=255)
cGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa < 1:811486/69‑1 (MQ=255)
cGAACAAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa > 1:881101/1‑69 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:2937981/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:2555346/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:2283798/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:2420032/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:1067407/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:1387648/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:1781147/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:1881160/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:2104157/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:559837/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGAAt < 1:2747754/65‑1 (MQ=255)
cAATGCCGGAAGTCTTCTTTACGGCGTTTGGTGCCAGCACGTTGGATCATGAGCTGCGCCTGTAt < 1:437138/65‑1 (MQ=39)
cAATGCCGGAAGTCTTCTTTACGGCGTCTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAt < 1:439957/65‑1 (MQ=255)
tGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTg < 1:1409641/69‑1 (MQ=255)
tGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTg < 1:3295974/69‑1 (MQ=255)
tGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTg < 1:2482647/69‑1 (MQ=255)
ccGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGaa > 1:1530541/1‑69 (MQ=255)
ccGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGaa > 1:3254205/1‑69 (MQ=255)
tcttctTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTa < 1:2850216/52‑1 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATg > 1:2129307/1‑38 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTAtgt > 1:3139342/1‑54 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTg > 1:2361960/1‑68 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:619079/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:939089/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:1001225/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:3385935/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:3334082/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:2902967/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:2836744/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:271869/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:2676027/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:2668170/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:2593428/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:2309321/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:214790/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:1363212/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:1300586/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:1132723/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:110055/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:1044177/1‑69 (MQ=255)
cttcttTACGGCATTTGGTGCCAGAACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGa > 1:1042299/1‑69 (MQ=255)
|
TGAAGGCGGCGACTGAGCACCCAAGGGTGATGCACGAACCAATGCCGGAAGTCTTCTTTACGGCATTTGGTGCCAGCACGTTGGATCATGAGCTGCGTCTGTATGTGCGTGAACTGCGTGA > minE/318072‑318192
|
| 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
