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 |
1,037,993 |
G→A |
100% |
T33T (ACG→ACA) |
rsxG → |
predicted oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,037,993 | 0 | G | A | 81.0%
| 67.2
/ 8.2
| 47 | T33T (ACG→ACA) | rsxG | predicted oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base G (8/1); new base A (25/13); total (33/14) |
| Fisher's exact test for biased strand distribution p-value = 2.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ACGTTGGCGCTATTTGCAGCGGGTTCAACAGGGTTAACTGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGTGCTGCCAGCCGAACGC > minE/1037925‑1038056
|
aCGTTGGCGCTATTTGCAGCGGGTTCAACAGGGTTAACTGCGGCCATCAACCAGATGACCAAAacgacg < 1:666109/69‑1 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:61331/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:3103620/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:3254630/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:3416440/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:2852020/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:2817946/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:42754/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:2623759/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:59200/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:2370970/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:2210758/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:2124537/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:2084606/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:1963829/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:1105424/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:1326670/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:1097706/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:1649369/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:166911/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:1745119/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:1865512/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAg > 1:1870541/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTATGCAACAAAAg > 1:312301/1‑69 (MQ=255)
gggTTAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGAACAGGCAAGTCTGCAACAAAAg > 1:2564582/1‑69 (MQ=255)
gggATAACTGCGGCCATCAACCAGATGACCAAAACGACAATTGCTGaa > 1:397746/1‑48 (MQ=39)
gaaaaCTGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGc < 1:2010565/66‑1 (MQ=255)
gTTAACTGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGc > 1:576856/1‑69 (MQ=255)
gTTAACTGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGc > 1:507536/1‑69 (MQ=255)
gTTAACTGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGc > 1:486568/1‑69 (MQ=255)
gTTAACTGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGc > 1:67862/1‑69 (MQ=255)
gTTAACTGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGc > 1:1270822/1‑69 (MQ=255)
gTTAACTGCGG‑CATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGc > 1:2985400/1‑68 (MQ=255)
tGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTAt > 1:751120/1‑68 (MQ=255)
tGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTAt > 1:247467/1‑68 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:3094241/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:3132462/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:305352/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:2919736/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:2801806/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:2683846/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:2597091/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:2555934/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:2225102/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:1678502/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:1394220/69‑1 (MQ=255)
aaCCAGATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:134234/69‑1 (MQ=255)
gATGACCAAAACGACAATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGtg < 1:633675/64‑1 (MQ=255)
acgacgATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGTGCTGCCAGCCGAACGc > 1:3289623/1‑69 (MQ=255)
acgacgATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGTGCTGCCAGCCGAACGc > 1:2950479/1‑69 (MQ=255)
|
ACGTTGGCGCTATTTGCAGCGGGTTCAACAGGGTTAACTGCGGCCATCAACCAGATGACCAAAACGACGATTGCTGAACAGGCCAGTCTGCAACAAAAGGCGTTATTTGATCAGGTGCTGCCAGCCGAACGC > minE/1037925‑1038056
|
| 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
