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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
834,842 |
C→A |
34.9% |
S1100S (TCC→TCA) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 834,842 | 0 | C | A | 34.9%
| 87.3
/ 48.2
| 63 | S1100S (TCC→TCA) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base C (18/23); new base A (8/14); total (26/37) |
| Fisher's exact test for biased strand distribution p-value = 6.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.16e-01 |
ATCCAACGGCAACCAGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCTGGTTGAGTGAAGCC > minE/834776‑834911
|
aTCCAACGGCAACCAGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCAcc > 1:4653409/1‑70 (MQ=255)
cAACGGCAACCAGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTa > 1:5375499/1‑69 (MQ=255)
cGGCAACCAGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAg > 1:2368751/1‑69 (MQ=255)
cGGCAACCAGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGc > 1:4637303/1‑70 (MQ=255)
ggCAACCAGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGa > 1:2051331/1‑71 (MQ=255)
cAACCAGGAAAAAGCGCTCAACTTTCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACa < 1:3852092/71‑1 (MQ=255)
aaCCAGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACa < 1:2695136/70‑1 (MQ=255)
ccggAAAAAGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAAcc < 1:4368715/68‑1 (MQ=255)
cAGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACaa > 1:1402299/1‑68 (MQ=255)
cggAAAAAGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAAc < 1:3157486/67‑1 (MQ=255)
cggAAAAAGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAAc < 1:567457/67‑1 (MQ=255)
cggAAAAAGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAAc < 1:189225/67‑1 (MQ=255)
aGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACctg > 1:3144394/1‑71 (MQ=255)
gAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACctgct < 1:1125150/71‑1 (MQ=255)
gAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACctgct < 1:916451/71‑1 (MQ=255)
gAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACctgct < 1:3603640/71‑1 (MQ=255)
gAAAAAGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTAGAGTGAAAACct > 1:2600314/1‑68 (MQ=255)
gAAAAAGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAgtg < 1:2542890/61‑3 (MQ=255)
aaaaGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCtgctga > 1:4887880/1‑71 (MQ=255)
aaaGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCtgctaat > 1:4634689/1‑71 (MQ=255)
aaGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCtgctaatg < 1:3896675/71‑1 (MQ=255)
aaGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCtgctaatg < 1:5477393/71‑1 (MQ=255)
aGCACTTAACTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCtgctaatgc > 1:305566/1‑71 (MQ=255)
gcgcTCAACTTCCTGACGCCGCACCAGAAGTGGGGTAtccactccac > 1:1098225/1‑47 (MQ=255)
gcgcTCAACTTCCTGACGCCGCACCAGAAGTGGGGTAtccactccac > 1:839167/1‑47 (MQ=255)
gcgcTCAACTTCCTGACGCCGCACCAGAAGTGGGGTAtccactccac > 1:5211438/1‑47 (MQ=255)
gcgcTCAACTTCCTGACGCCGCACCAGAAGTGGGGTAtccactccac > 1:5217717/1‑47 (MQ=255)
gcgcTCAACTTCCTGACGCCGCACCAGAAGTGGGGTAtccactcca > 1:1030869/1‑46 (MQ=255)
gcgcTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCtgctgatgct < 1:778149/71‑1 (MQ=255)
gcgcTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCtgctgatgct < 1:3647857/71‑1 (MQ=255)
gcgcTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCtgctgatgct < 1:4230928/71‑1 (MQ=255)
cgcTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCtgctgatgct > 1:3873271/1‑70 (MQ=255)
cttaaCTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCTGCTAATGCTGAc > 1:132462/4‑71 (MQ=255)
cttaaCTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCTGCTAATGCTGAc > 1:3654334/4‑71 (MQ=255)
ttaaCTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACcttct < 1:2322660/59‑1 (MQ=255)
ttaaCTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCTGCTAATGCTGAcg > 1:2673952/3‑70 (MQ=255)
ttaaCTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCTGCTAATGCTGAcg > 1:2037702/3‑70 (MQ=255)
aaCTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGCCtt > 1:456030/1‑70 (MQ=255)
aaCTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACttt < 1:5208427/71‑1 (MQ=255)
aaCTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACttt < 1:3100376/71‑1 (MQ=255)
aaCTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACttt < 1:2071783/71‑1 (MQ=255)
aaCTTCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCTGCTAATGCTGAcgct > 1:270191/1‑68 (MQ=255)
aCTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACtt > 1:1076048/1‑69 (MQ=255)
aCTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACtt > 1:1695595/1‑69 (MQ=255)
cTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAg > 1:5416809/1‑71 (MQ=255)
tCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGGCa < 1:2015197/48‑1 (MQ=255)
tCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGt > 1:3679281/1‑71 (MQ=255)
tCCTGACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGaaa < 1:4457032/48‑3 (MQ=19)
cTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTcg < 1:1511231/71‑1 (MQ=255)
gACGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACctgctaa < 1:3006596/53‑3 (MQ=255)
aCGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGcgg < 1:4046506/71‑1 (MQ=255)
aCGCCGCACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACCTGCTAATGCTGAcgct < 1:1805862/62‑4 (MQ=255)
cgccgcACCAGAAATGGGGCATTCAGTCAACCTACAGTGAAAACCTGCTAATGCTGAcgct < 1:1920594/61‑4 (MQ=255)
gccgcACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACctgct < 1:1119767/48‑1 (MQ=19)
gccgcACCAGAAATGGGGCATTCACTCAACCTACAGTGAAAACctgct < 1:1606080/48‑1 (MQ=19)
ccgcACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGcggtgg < 1:4735454/71‑1 (MQ=255)
cgcACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGcggtggt > 1:2559416/1‑71 (MQ=255)
gcACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGcggtggtc > 1:4439869/1‑71 (MQ=255)
aCCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGcggtggtccg < 1:368621/71‑1 (MQ=255)
cAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCtgctgatg < 1:3101428/45‑1 (MQ=255)
cAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCtgctgatg < 1:434018/45‑1 (MQ=255)
cAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCtgctgatg < 1:5671764/45‑1 (MQ=255)
aGAAGTAGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGcgg < 1:3939067/61‑1 (MQ=255)
gAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAgg > 1:2987148/1‑54 (MQ=255)
gTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCt > 1:1825984/1‑71 (MQ=255)
tGGGGTATCCACTCCACCTACAGCGACAACCtgctgatgct < 1:5218110/41‑1 (MQ=255)
tATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGcggtggtc < 1:4076261/56‑1 (MQ=255)
aTCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCTGGtt < 1:825208/68‑1 (MQ=255)
ccactccacCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGcggtggtccg < 1:3825328/55‑1 (MQ=255)
cactccacCTACAGCGACAACCTGCTGATGCTGACTTTa > 1:4400425/1‑39 (MQ=255)
cactccacCTACAGCGACAACCTGCTGATGCTGACTTTa > 1:3318768/1‑39 (MQ=255)
cactccacCTACAGCGACAACCTGCTGATGCTGACTTTa > 1:4990428/1‑39 (MQ=255)
cactccacCTACAGCGACAACCTGCTGATGCTGACTTTa > 1:4188080/1‑39 (MQ=255)
cactccacCTACAGCGACAACCTGCTGATGCTGACTTTa > 1:5580994/1‑39 (MQ=255)
cactccacCTACAGCGACAACCTGCTGATGCTGACTTTAGGTcg > 1:5123155/1‑44 (MQ=255)
cactccacCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCTGGTTGAGTg < 1:4499858/70‑1 (MQ=255)
cactccacCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCTGGTTGAGTg > 1:2545110/1‑70 (MQ=255)
cactccacCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCTGGTTGAGTg > 1:4805053/1‑70 (MQ=255)
tccacCTACAGCGACAACCTGCTGATGCTGACTTTAGGt > 1:1228432/1‑39 (MQ=255)
cacCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCTGGTTGAGTGAAGcc < 1:5009583/70‑1 (MQ=255)
cacCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCTGGTTGAGTGAAGcc < 1:4441411/70‑1 (MQ=255)
cacCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCTGGTTGAGTGAAGcc < 1:3818974/70‑1 (MQ=255)
|
ATCCAACGGCAACCAGGAAAAAGCGCTCAACTTCCTGACGCCGCACCAGAAGTGGGGTATCCACTCCACCTACAGCGACAACCTGCTGATGCTGACTTTAGGTCGCGGTGGTCCGGTGGTCTGGTTGAGTGAAGCC > minE/834776‑834911
|
| 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
