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 |
1,242,341 |
C→T |
31.1% |
D259D (GAC→GAT) |
pykA → |
pyruvate kinase II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,242,341 | 0 | C | T | 31.1%
| 74.0
/ 36.8
| 80 | D259D (GAC→GAT) | pykA | pyruvate kinase II |
| Reads supporting (aligned to +/- strand): ref base C (35/20); new base T (8/17); total (43/37) |
| Fisher's exact test for biased strand distribution p-value = 1.47e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.64e-01 |
GATGACATCATCCTCGCCTCTGACGTGGTAATGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGT > minE/1242273‑1242403
|
gATGACATCATCCTCGCCTCTGACGTGGTAATGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGAc > 1:406948/1‑69 (MQ=255)
aCATCATCCTCGCCTCTGACGTGGTAATGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCgg < 1:1675835/69‑1 (MQ=255)
atcCTCGCCTCTGACGTGGTAATGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTg > 1:1708515/1‑69 (MQ=255)
atcCTCGCCTCTGACGTGGTAATGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTg > 1:157096/1‑69 (MQ=255)
ctctGACGTGGTAATGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCa < 1:2697898/68‑1 (MQ=255)
ctctGACGTGGTAATGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCa < 1:2941810/68‑1 (MQ=255)
gTAATGGTTGCTCGCGGCGACCTCGGTGTGGAAATTGGCGATCCGGAACTGGTCGGCATTCAGAAAGCg > 1:734777/1‑69 (MQ=255)
gTAATGGTTGCTCGCGGCGACCTCGGTGTGGAAATTGGCGATCCGGAACTGGTCGGCATTCAGAAAGCg > 1:2507675/1‑69 (MQ=255)
gTAATGGTTGCTCGCGGCGACCTCGGTGTGGAAATTGGCGATCCGGAACTGGTCGGCATTCAGAAAGCg > 1:2149044/1‑69 (MQ=255)
gTAATGGTTGCTCGCGGCGACCTCGGTGTGGAAATTGGCGATCCGGAACTGGTCGGCATTCAGAAAGCg > 1:2037226/1‑69 (MQ=255)
gTAATGGTTGCTCGCGGCGACCTCGGTGTGGAAATTGGCGATCCGGAACTGGTCGGCATTCAGAAAGCg > 1:2570766/1‑69 (MQ=255)
gTAATGGTTGCTCGCGGCGACCTCGGTGTGGAAATTGGCGATCCGGAACTGGTCGGCATTCAGAAAGCg > 1:1585299/1‑69 (MQ=255)
gTAATGGTTGCTCGCGGCGACCTCGGTGTGGAAATTGGCGATCCGGAACTGGTCGGCATTCAGAAAGCg > 1:2839850/1‑69 (MQ=255)
gTAATGGTTGCTCGCGGCGACCTCGGTGTGGAAATTGGCGATCCGGAACTGGTCGGCATTCAGAAAGCg > 1:2615288/1‑69 (MQ=255)
aaTGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGtt > 1:2917065/1‑69 (MQ=255)
aaTGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGtt > 1:2122770/1‑69 (MQ=255)
aaTGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGtt > 1:2091480/1‑69 (MQ=255)
aaTGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGtt > 1:1956580/1‑69 (MQ=255)
aaTGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGtt > 1:190586/1‑69 (MQ=255)
aaTGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGtt > 1:3318434/1‑69 (MQ=255)
aaTGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGtt > 1:1005567/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGCCCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:2294690/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:2037089/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:2290760/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:3183806/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:820354/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:948159/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:1511414/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:576154/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:2810217/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:570021/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:1899154/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:161212/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:2718906/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:1761252/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:3423065/1‑69 (MQ=255)
gTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATc > 1:1623589/1‑69 (MQ=255)
ggCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTgcg < 1:985847/69‑1 (MQ=255)
ggCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTgcg < 1:1211718/69‑1 (MQ=255)
gACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGt < 1:3425032/69‑1 (MQ=255)
gACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGt < 1:1482705/69‑1 (MQ=255)
gACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGt < 1:1487002/69‑1 (MQ=255)
tgtgGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTaa < 1:3033526/68‑1 (MQ=255)
tgtgGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTaa < 1:709517/68‑1 (MQ=255)
tgtgGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTaa < 1:2244053/68‑1 (MQ=255)
tgtgGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTaa < 1:1542863/68‑1 (MQ=255)
tgtgGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTaa < 1:575249/68‑1 (MQ=255)
tgtgGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTaa < 1:3415032/68‑1 (MQ=255)
tgtgGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTaa < 1:489957/68‑1 (MQ=255)
tgGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTaaa > 1:1144986/1‑67 (MQ=255)
tgGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTaaa > 1:18267/1‑67 (MQ=255)
gAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGa > 1:996827/1‑69 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCTTTGATCCGTCGTGCGCGTCAGCtta < 1:1259184/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCTTGCGCGTCAGCtta < 1:531120/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:1736582/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:1267750/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:1559506/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:906221/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:1636148/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:1658898/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:2659011/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:1688222/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:2611915/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:189102/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:3318096/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:2452998/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:1226284/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:2891302/59‑3 (MQ=255)
tGGCGATCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCtta < 1:2587375/59‑3 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGATCGGt > 1:2273117/1‑69 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGATCGGt > 1:2276954/1‑69 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCgg > 1:1547518/1‑68 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGt < 1:353728/69‑1 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGt < 1:899193/69‑1 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGt > 1:817945/1‑69 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGt < 1:1403437/69‑1 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGt > 1:1406920/1‑69 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGt > 1:1601670/1‑69 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGt > 1:3169923/1‑69 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGt < 1:2464700/69‑1 (MQ=255)
tGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGt < 1:2612844/69‑1 (MQ=255)
|
GATGACATCATCCTCGCCTCTGACGTGGTAATGGTTGCACGTGGCGACCTCGGTGTGGAAATTGGCGACCCGGAACTGGTCGGCATTCAGAAAGCGTTGATCCGTCGTGCGCGTCAGCTAAACCGAGCGGT > minE/1242273‑1242403
|
| 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
