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 |
1,829,877 |
T→C |
22.5% |
G151G (GGT→GGC) |
pphB → |
serine/threonine‑specific protein phosphatase 2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,829,877 | 0 | T | C | 22.5%
| 65.6
/ 14.8
| 53 | G151G (GGT→GGC) | pphB | serine/threonine‑specific protein phosphatase 2 |
| Reads supporting (aligned to +/- strand): ref base T (13/28); new base C (5/7); total (18/35) |
| Fisher's exact test for biased strand distribution p-value = 7.30e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.89e-01 |
TAACGACAACATAAAATATGCCATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCTTAA > minE/1829814‑1829936
|
tAACGACAACATAAAATATGCCATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGa < 1:1096971/69‑1 (MQ=255)
tAACGACAACATAAAATATGCCATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGa < 1:1245858/69‑1 (MQ=255)
tAACGACAACATAAAATATGCCATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGa < 1:61972/69‑1 (MQ=255)
ccATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTa < 1:1949555/68‑1 (MQ=255)
ccATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTa < 1:1024594/68‑1 (MQ=255)
ccATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTa < 1:1945561/68‑1 (MQ=255)
ccATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTa < 1:1873970/68‑1 (MQ=255)
ccATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTa < 1:1844049/68‑1 (MQ=255)
caTGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGcc > 1:1147105/1‑68 (MQ=255)
caTGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCt > 1:1325913/1‑69 (MQ=255)
caTGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCt > 1:980497/1‑69 (MQ=255)
caTGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCt > 1:3262612/1‑69 (MQ=255)
aTGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTg < 1:944500/69‑1 (MQ=255)
ttATCCGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCg > 1:1768110/1‑69 (MQ=255)
ttATCCGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCg > 1:307941/1‑69 (MQ=255)
ttATCCGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCg > 1:1756966/1‑69 (MQ=255)
ttATCCGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCg > 1:67493/1‑69 (MQ=255)
ttATCCGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCg > 1:1632986/1‑69 (MQ=255)
tATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTgg < 1:1268467/57‑1 (MQ=255)
tATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTgg < 1:3238235/57‑1 (MQ=255)
tATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTgg < 1:3016252/57‑1 (MQ=255)
tATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTgg < 1:3012315/57‑1 (MQ=255)
tATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTgg < 1:2890198/57‑1 (MQ=255)
tATCCGGGGAGTGAATATCTATTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTgg < 1:1107266/57‑1 (MQ=255)
ccGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCgtgt < 1:3393192/68‑1 (MQ=255)
ccGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCgtgt < 1:989294/68‑1 (MQ=255)
ccGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCgtgt < 1:1395852/68‑1 (MQ=255)
ccGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCgtgt < 1:2413416/68‑1 (MQ=255)
ccGGGGAAGGAGTATCAGTTTGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCgtgt < 1:1937453/68‑1 (MQ=255)
cGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCgtg > 1:1780682/1‑66 (MQ=255)
cGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCgtg > 1:3302957/1‑66 (MQ=255)
gAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGaa < 1:685486/69‑1 (MQ=255)
aaTATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCg > 1:2532395/1‑68 (MQ=255)
aaTATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCg > 1:911809/1‑68 (MQ=255)
aaTATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCg > 1:2529794/1‑68 (MQ=255)
aaTATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCg > 1:1843075/1‑68 (MQ=255)
tatCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt < 1:1325010/69‑1 (MQ=255)
tatCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt < 1:1677325/69‑1 (MQ=255)
tatCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt < 1:473681/69‑1 (MQ=255)
tatCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt < 1:413812/69‑1 (MQ=255)
tatCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt > 1:3336583/1‑69 (MQ=255)
tatCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt < 1:320711/69‑1 (MQ=255)
tatCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt < 1:2924565/69‑1 (MQ=255)
tatCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt < 1:2687377/69‑1 (MQ=255)
atCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt < 1:2826718/68‑1 (MQ=255)
atCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCtt < 1:2809731/68‑1 (MQ=255)
tctcTTTGGTAAAGAAATAGCGGAGAGCGAATTAc < 1:3385219/35‑1 (MQ=255)
tctcTTTGGTAAAGAAATAGCGGAGAGCGAATTAc < 1:2086038/35‑1 (MQ=255)
tctcTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCTTaa > 1:231469/1‑69 (MQ=255)
tctcTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCTTaa > 1:2516272/1‑69 (MQ=255)
agtttGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGaa < 1:664721/56‑1 (MQ=255)
agtttGGCAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGaa < 1:1448272/56‑1 (MQ=255)
ctTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTgg < 1:3244310/37‑1 (MQ=255)
|
TAACGACAACATAAAATATGCCATCGCACATGCAGATTATCCGGGGAGTGAATATCTCTTTGGTAAAGAAATAGCGGAGAGCGAATTACTCTGGCCTGTTGATCGTGTGCAGAAATCGCTTAA > minE/1829814‑1829936
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
