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 |
2,499,188 |
G→A |
52.5% |
E12E (GAG→GAA) |
ilvN → |
acetolactate synthase I, small subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,499,188 | 0 | G | A | 52.5%
| 2.1
/ 70.0
| 80 | E12E (GAG→GAA) | ilvN | acetolactate synthase I, small subunit |
| Reads supporting (aligned to +/- strand): ref base G (30/8); new base A (7/35); total (37/43) |
| Fisher's exact test for biased strand distribution p-value = 2.51e-08 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.50e-01 |
CTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTGCCCGCCGCGCT > minE/2499130‑2499251
|
cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt > 1:2722072/1‑68 (MQ=255)
cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt > 1:2744850/1‑68 (MQ=255)
cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt > 1:3138310/1‑68 (MQ=255)
cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt > 1:1772236/1‑68 (MQ=255)
cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt > 1:3192199/1‑68 (MQ=255)
cTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGtt > 1:1539153/1‑68 (MQ=255)
tGAAATGGTGGTGTAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:886429/66‑1 (MQ=255)
tGAAATGGTGGGGGATTAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:2789458/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:371587/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:2479652/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:2621958/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:2729349/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:278605/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:3416282/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:1547282/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:1530582/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:95261/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:1452635/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:1225777/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:452429/66‑1 (MQ=255)
tGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGCAACTCACCGt < 1:3311534/66‑1 (MQ=255)
gAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:379791/65‑1 (MQ=255)
gAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:2974152/65‑1 (MQ=255)
gAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:2847448/65‑1 (MQ=255)
tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACt > 1:2958952/1‑52 (MQ=255)
tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc > 1:1544808/1‑69 (MQ=255)
tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc > 1:1002057/1‑69 (MQ=255)
tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc > 1:1155852/1‑69 (MQ=255)
tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc > 1:1240648/1‑69 (MQ=255)
tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc > 1:1715448/1‑69 (MQ=255)
tggGGGAATAAGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATc > 1:1465920/1‑69 (MQ=255)
aaTAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGc > 1:419493/1‑68 (MQ=255)
aaGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:908172/49‑1 (MQ=38)
aaGCCATGCAAAACACAACTCATGATAACGTGATTCTGGAACTCACCGt < 1:974305/49‑1 (MQ=38)
ccATGCAAAACACAAATCATGATAACGTGATTCTTGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:1386885/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:3095096/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:2586378/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:1814379/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:1048444/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:129523/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:157715/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:1578105/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:2444778/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:1972595/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:2074895/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:2112520/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:2165481/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:2188644/69‑1 (MQ=255)
ccATGCAAAACACAAATCATGATAACGTGATTCTGGAACTCACCGTTCGCAACCATCCGGGTGTAATGa < 1:2184781/69‑1 (MQ=255)
cAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCAc > 1:1572744/1‑69 (MQ=255)
cAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCAc > 1:2905902/1‑69 (MQ=255)
cAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCAc > 1:700130/1‑69 (MQ=255)
cAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCAc > 1:3046642/1‑69 (MQ=255)
cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg > 1:1333135/1‑69 (MQ=255)
cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg > 1:154841/1‑69 (MQ=255)
cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg > 1:3091701/1‑69 (MQ=255)
cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg > 1:2020776/1‑69 (MQ=255)
cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg > 1:472443/1‑69 (MQ=255)
cacaACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTtg > 1:725543/1‑69 (MQ=255)
cATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCtt < 1:2608797/69‑1 (MQ=255)
cATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCtt < 1:2200045/69‑1 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa < 1:1281247/48‑1 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa < 1:2520413/48‑1 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa < 1:470228/48‑1 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa < 1:1080347/48‑1 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa < 1:2031616/48‑1 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGa < 1:290662/48‑1 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTg > 1:664743/1‑69 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTg > 1:2838723/1‑69 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTg > 1:1136960/1‑69 (MQ=255)
aCAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTg > 1:2091807/1‑69 (MQ=255)
cTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGCCACACGTTTGTGGCCTTTTTGCCCGCCgcgc > 1:823277/1‑68 (MQ=255)
cTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCATGTTTGTGGCCTTTTTGCCCGCCGCGCt > 1:2113753/1‑69 (MQ=255)
cTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTGCCCGCCGCGCt > 1:431361/1‑69 (MQ=255)
cTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTGCCCGCCGCGCt > 1:2523445/1‑69 (MQ=255)
cTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTGCCCGCCGCGCt > 1:3014294/1‑69 (MQ=255)
cTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTGCCCGCCGCGCt > 1:672703/1‑69 (MQ=255)
cTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTGCCCGCCGCGCt > 1:845536/1‑69 (MQ=255)
cTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTGCCCGCCGCGCt > 1:1266061/1‑69 (MQ=255)
cTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTGCCCGCCGCGCt > 1:946936/1‑69 (MQ=255)
|
CTGAAATGGTGGGGGAATAAGCCATGCAAAACACAACTCATGACAACGTAATTCTGGAGCTCACCGTTCGCAACCATCCGGGCGTAATGACCCACGTTTGTGGCCTTTTTGCCCGCCGCGCT > minE/2499130‑2499251
|
| 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
