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 |
1,629,654 |
G→A |
37.8% |
D31D (GAC→GAT) |
yffH ← |
predicted NUDIX hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,629,654 | 0 | G | A | 37.8%
| 34.6
/ 41.9
| 66 | D31D (GAC→GAT) | yffH | predicted NUDIX hydrolase |
| Reads supporting (aligned to +/- strand): ref base G (30/11); new base A (8/17); total (38/28) |
| Fisher's exact test for biased strand distribution p-value = 1.82e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
AGGAGGATCGTCGCACCATTGCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGGAGAGAATTTTGTCTTT > minE/1629592‑1629722
|
aggaggATCGTCGCACCATTACCGCGATCGTAAACTTCACGTTTATGGCGGATAACTTCGCCATCttt > 1:838985/1‑68 (MQ=255)
aggaggATCGTCGCACCATTACCGCGATCGTAAACTTCACGTTTATGGCGGATAACTTCGCCATCTTTg > 1:1055048/1‑69 (MQ=255)
aggaggATCGTCGCACCATTACCGCGATCGTAAACTTCACGTTTATGGCGGATAACTTCGCCATCTTTg > 1:1211259/1‑69 (MQ=255)
aggaggATCGTCGCACCATTACCGCGATCGTAAACTTCACGTTTATGGCGGATAACTTCGCCATCTTTg > 1:595694/1‑69 (MQ=255)
aggaggATCGTCGCACCATTACCGCGATCGTAAACTTCACGTTTATGGCGGATAACTTCGCCATCTTTg > 1:306405/1‑69 (MQ=255)
aggaggATCGTCGCACCATTACCGCGATCGTAAACTTCACGTTTATGGCGGATAACTTCGCCATCTTTg > 1:2861500/1‑69 (MQ=255)
aggaggATCGTCGCACCATTACCGCGATCGTAAACTTCACGTTTATGGCGGATAACTTCGCCATCTTTg > 1:237746/1‑69 (MQ=255)
aggaggATCGTCGCACCATTACCGCGATCGTAAACTTCACGTTTATGGCGGATAACTTCGCCATCTTTg > 1:2023582/1‑69 (MQ=255)
ccATTGCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCgta > 1:2722622/1‑68 (MQ=255)
tGCCGCGATCGTACACTTGACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGt < 1:38613/55‑1 (MQ=255)
tGCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGt < 1:1186388/55‑1 (MQ=255)
tGCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGt < 1:764681/55‑1 (MQ=255)
tGCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGt < 1:3107985/55‑1 (MQ=255)
tGCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGt < 1:2576370/55‑1 (MQ=255)
tGCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGt < 1:195090/55‑1 (MQ=255)
tGCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGt < 1:1456822/55‑1 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:533264/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:3095670/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:3124948/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:2434388/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:77490/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:784841/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:837733/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:1783821/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:844593/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:1202021/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:1795857/1‑69 (MQ=255)
gCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAAt > 1:2098592/1‑69 (MQ=255)
aTCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTtgtg < 1:3028407/69‑1 (MQ=255)
aTCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTtgtg < 1:2419507/69‑1 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa > 1:2524592/1‑69 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa > 1:883082/1‑69 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa < 1:1820057/69‑1 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa > 1:2889211/1‑69 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa > 1:2815092/1‑69 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa > 1:1693794/1‑69 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa > 1:2493097/1‑69 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa > 1:752173/1‑69 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa > 1:2298566/1‑69 (MQ=255)
cGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCa > 1:789382/1‑69 (MQ=255)
tCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGaaa < 1:145474/69‑1 (MQ=255)
tCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGa > 1:522723/1‑67 (MQ=255)
tCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGa > 1:3334516/1‑67 (MQ=255)
tCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGa > 1:3024440/1‑67 (MQ=255)
tCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGa > 1:678055/1‑67 (MQ=255)
tCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGa > 1:1725797/1‑67 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCTTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:735871/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:1332160/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:1833273/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:1859765/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:1962132/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:2264912/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:3005378/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:2427575/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:1607231/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:427527/69‑1 (MQ=255)
gCGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:2925908/69‑1 (MQ=255)
cgtaTAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:1509225/65‑1 (MQ=255)
cGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:431105/68‑1 (MQ=255)
cGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:2392106/68‑1 (MQ=255)
cGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:419473/68‑1 (MQ=255)
cGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:137839/68‑1 (MQ=255)
cGGATAACTTCGCCATCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGga < 1:210099/68‑1 (MQ=255)
tAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGGAGAGaa > 1:485348/1‑69 (MQ=255)
tAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGGAGAGaa > 1:2074395/1‑69 (MQ=255)
tAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGGAGAGaa > 1:3201313/1‑69 (MQ=255)
gTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGGAGAGAATTTTGTCttt < 1:124733/69‑1 (MQ=255)
gTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGGAGAGAATTTTGTCttt > 1:2188347/1‑69 (MQ=255)
gTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGGAGAGAATTTTGTCttt < 1:836022/69‑1 (MQ=255)
gTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGGAGAGAATTTTGTCttt < 1:2871249/69‑1 (MQ=255)
|
AGGAGGATCGTCGCACCATTGCCGCGATCGTACACTTCACGTTTATGGCGGATAACTTCGCCGTCTTTGCGCGTGAGATCGTAAGTAATGTTGTGCAGGGTGAAATAGTTATCGGAGAGAATTTTGTCTTT > minE/1629592‑1629722
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
