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 |
2,962,938 |
C→T |
29.6% |
V140I (GTT→ATT) |
yjjI ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,962,938 | 0 | C | T | 29.6%
| 114.1
/ 49.9
| 111 | V140I (GTT→ATT) | yjjI | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (28/50); new base T (16/17); total (44/67) |
| Fisher's exact test for biased strand distribution p-value = 2.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
Only 100 of 112 total aligned reads displayed.
GCATAAAGGCGTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACGCATCCAGTTGCCCCA > minE/2962881‑2963000
|
gCATAAAGGCGTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGt < 1:1858086/69‑1 (MQ=255)
gCATAAAGGCGTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGt < 1:2054924/69‑1 (MQ=255)
gCATAAAGGCGTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGt < 1:617621/69‑1 (MQ=255)
gCATAAAGGCGTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGt < 1:2634843/69‑1 (MQ=255)
gCATAAAGGCGTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGt < 1:2570027/69‑1 (MQ=255)
gCATAAAGGCGTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGt < 1:2944346/69‑1 (MQ=255)
cATAAAGGCGTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGt < 1:3077389/68‑1 (MQ=255)
gTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:1646507/69‑1 (MQ=255)
gTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:3365211/69‑1 (MQ=255)
gTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:3215588/69‑1 (MQ=255)
gTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:382773/69‑1 (MQ=255)
gTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:2075993/69‑1 (MQ=255)
gTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:2656723/69‑1 (MQ=255)
gTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:2803831/69‑1 (MQ=255)
gTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:876942/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:1218571/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:241189/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:1263922/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:710063/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:1106575/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:2660797/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:10826/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:1413689/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:1538879/69‑1 (MQ=255)
tCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:2684492/69‑1 (MQ=255)
tCTGGCAGGGTGCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:1030378/69‑1 (MQ=255)
cTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:2838773/68‑1 (MQ=255)
cTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGa < 1:3082437/68‑1 (MQ=255)
tGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:2012836/66‑1 (MQ=255)
gCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAAc > 1:149410/1‑43 (MQ=255)
gCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAAtt > 1:3138774/1‑68 (MQ=255)
gCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAAtt > 1:3346051/1‑68 (MQ=255)
gCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAAtt > 1:1351721/1‑68 (MQ=255)
gCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAAtt > 1:129554/1‑68 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:2267403/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:2713673/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:874004/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:806458/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:2937609/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:2299544/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:2179747/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:580365/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:1596447/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:3146151/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTaa > 1:1369427/1‑69 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTa > 1:1254495/1‑68 (MQ=255)
gggTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAATATCGATCTCGTCTTGTGTTAGAATTCTa > 1:2020539/1‑68 (MQ=255)
gTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGtt < 1:2435188/57‑1 (MQ=255)
gTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGtt < 1:794644/57‑1 (MQ=255)
gTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGtt < 1:267780/57‑1 (MQ=255)
gTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACa > 1:1899696/1‑69 (MQ=255)
gTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACa > 1:7027/1‑69 (MQ=255)
gTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACa > 1:1138534/1‑69 (MQ=255)
gTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACa > 1:2937906/1‑69 (MQ=255)
gTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACa > 1:106911/1‑69 (MQ=255)
gTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACa > 1:2788604/1‑69 (MQ=255)
ttCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:2809577/1‑58 (MQ=255)
ttCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:3318400/1‑58 (MQ=255)
ttCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:948483/1‑58 (MQ=255)
ttCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:1702911/1‑58 (MQ=255)
ttCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:1065270/1‑58 (MQ=255)
ttCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:1068277/1‑58 (MQ=255)
ttCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:1323599/1‑58 (MQ=255)
ttCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:1629527/1‑58 (MQ=255)
ttCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:1800784/1‑58 (MQ=255)
atCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg > 1:1591355/2‑58 (MQ=255)
cTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAg < 1:3324676/56‑1 (MQ=255)
gAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGt < 1:2802325/67‑1 (MQ=255)
gAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGt < 1:2351996/67‑1 (MQ=255)
gAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGt < 1:1100964/67‑1 (MQ=255)
gAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGt < 1:421414/67‑1 (MQ=255)
gAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGt < 1:611890/67‑1 (MQ=255)
aCGCCAGAAACGTTTTTTTCGAACATCGATCTCGTCTTgtgt < 1:1868292/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:2688674/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:141799/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:611559/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:2718463/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:746300/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:1087056/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:2754559/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:880967/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:90964/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:3302388/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:2682086/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:2398183/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:2343295/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:1853796/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:3121511/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:205734/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:2199830/42‑1 (MQ=255)
aCGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTgtgt < 1:2965608/42‑1 (MQ=255)
gCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACg > 1:1110371/1‑69 (MQ=255)
gCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACg > 1:42504/1‑69 (MQ=255)
aCGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACGCATCCAg > 1:2934124/1‑69 (MQ=255)
ttATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACGCATCCAGTTGc > 1:2109209/1‑68 (MQ=255)
ttATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACGCATCCAGTTGc > 1:135297/1‑68 (MQ=255)
tCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACGCATCCAGTTGCCCCa < 1:1109187/68‑1 (MQ=255)
tCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACGCATCCAGTTGCCCCa < 1:2702833/68‑1 (MQ=255)
tCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACGCATCCAGTTGCCCCa < 1:1159104/68‑1 (MQ=255)
tCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACGCATCCAGTTGCCCCa < 1:2521343/68‑1 (MQ=255)
|
GCATAAAGGCGTCTGGCAGGGTTCTGTCGAGGTAACGCCAGAAACGTTTTATTCGAACATCGATCTCGTCTTGTGTTAGAATTCTAACATACGGTTGCAACAACGCATCCAGTTGCCCCA > minE/2962881‑2963000
|
| 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
