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 |
2,736,011 |
T→A |
50.9% |
A385A (GCT→GCA) |
fusA → |
protein chain elongation factor EF‑G |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,736,011 | 0 | T | A | 50.9%
| ‑4.7
/ 63.9
| 53 | A385A (GCT→GCA) | fusA | protein chain elongation factor EF‑G |
| Reads supporting (aligned to +/- strand): ref base T (15/11); new base A (14/13); total (29/24) |
| Fisher's exact test for biased strand distribution p-value = 7.85e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.65e-01 |
CAGATGCACGCTAACAAACGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCATTCTGG > minE/2735949‑2736075
|
cAGATGCACGCTAACAAACGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGt > 1:1009222/1‑69 (MQ=255)
cAGATGCACGCTAACAAACGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGt > 1:2574099/1‑69 (MQ=255)
cAGATGCACGCTAACAAACGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGt > 1:888432/1‑69 (MQ=255)
gCACGCTAACAAACGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGa < 1:1321748/68‑1 (MQ=255)
tAACAAACGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGt < 1:1898897/69‑1 (MQ=255)
aaCAAACGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTa > 1:3312875/1‑69 (MQ=255)
cGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACt < 1:1583513/69‑1 (MQ=255)
cGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACt < 1:1259291/69‑1 (MQ=255)
cGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACt < 1:3187745/69‑1 (MQ=255)
cGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACt < 1:1412047/69‑1 (MQ=255)
gAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGt < 1:3248031/69‑1 (MQ=255)
gAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGt < 1:2573010/69‑1 (MQ=255)
gAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGt < 1:2007716/69‑1 (MQ=255)
gAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGt < 1:2759570/69‑1 (MQ=255)
gAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGGCTGAAAGACGTAACCACTGGt < 1:3155562/69‑1 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:2028124/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:2548755/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:1969725/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:2155741/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:193716/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:243705/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:2445469/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:1030640/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:1074228/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:1076641/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:1487777/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:555407/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:1728818/1‑68 (MQ=255)
aaGAGATCAAAGAAGTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGt > 1:776713/1‑68 (MQ=255)
agaagTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAAc > 1:840819/1‑51 (MQ=255)
agaagTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAAc > 1:2662036/1‑51 (MQ=255)
agaagTGCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAAc > 1:440949/1‑51 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:2917511/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:942725/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:576203/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:426018/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:340028/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:333841/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:3235527/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:2493129/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:1240973/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:2171980/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:2494438/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:1913059/69‑1 (MQ=255)
gaagTTCGCGCGGGCGACATCGCAGCTGCAATCGGTCTGAAAGACGTAACCACTGGTGACACCCtgtgt < 1:2114198/69‑1 (MQ=255)
gTTCGCGCTGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGAc > 1:3369025/1‑69 (MQ=255)
gTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGAc > 1:2896035/1‑69 (MQ=255)
gTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGAc > 1:1305174/1‑69 (MQ=255)
aTCGCTGCTGCTATCGGTCTGAAAGACGTACCCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATc > 1:2372305/1‑69 (MQ=255)
aTCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATc > 1:301641/1‑69 (MQ=255)
aTCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATc > 1:1193926/1‑69 (MQ=255)
tCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCa > 1:106995/1‑69 (MQ=255)
tCGCTGCTGCTATCGGTCTGAAAGACGTAAACACTGGTGACACCCTGTGTGACCCGGATGCGCCGATc > 1:1573040/1‑68 (MQ=255)
gctgctgctATCGGTCTGAAAGAGGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGAt < 1:1255360/65‑1 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGAt < 1:354465/65‑1 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGAt < 1:890817/65‑1 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGAt < 1:1521353/65‑1 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGAt < 1:2902614/65‑1 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGAt < 1:3369394/65‑1 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGAt < 1:2857480/65‑1 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGAt < 1:3292399/65‑1 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCAtt > 1:376904/1‑69 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCAtt > 1:140969/1‑69 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCAtt > 1:525050/1‑69 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCAtt > 1:165380/1‑69 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCAtt > 1:1760966/1‑69 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCAtt > 1:2094315/1‑69 (MQ=255)
gctgctgctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCAtt > 1:1004957/1‑69 (MQ=255)
gctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCATTCTgg < 1:34886/67‑1 (MQ=255)
gctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCATTCTgg < 1:59521/67‑1 (MQ=255)
gctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCATTCTgg < 1:184366/67‑1 (MQ=255)
gctATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCATTCTgg < 1:1973457/67‑1 (MQ=255)
|
CAGATGCACGCTAACAAACGTGAAGAGATCAAAGAAGTTCGCGCGGGCGACATCGCTGCTGCTATCGGTCTGAAAGACGTAACCACTGGTGACACCCTGTGTGACCCGGATGCGCCGATCATTCTGG > minE/2735949‑2736075
|
| 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
