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 |
1,714,472 |
G→C |
32.0% |
A320A (GCC→GCG) |
yphG ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,714,472 | 0 | G | C | 32.0%
| 114.8
/ 73.4
| 103 | A320A (GCC→GCG) | yphG | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (35/35); new base C (22/11); total (57/46) |
| Fisher's exact test for biased strand distribution p-value = 1.39e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
Only 100 of 103 total aligned reads displayed.
TACTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCA > minE/1714413‑1714521
|
tACTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGTTTATCGGCaaaaa < 1:2214775/67‑1 (MQ=255)
tACTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCaaaaa < 1:791374/67‑1 (MQ=255)
tACTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCaaaaa < 1:1359580/67‑1 (MQ=255)
aCTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATAc > 1:958396/1‑69 (MQ=255)
aCTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATAc > 1:89668/1‑69 (MQ=255)
aCTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATAc > 1:427593/1‑69 (MQ=255)
aCTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATAc > 1:114479/1‑69 (MQ=255)
aCTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATAc > 1:598713/1‑69 (MQ=255)
aCTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGAGCTGGTTATCGGCAAAAATAc > 1:1156137/1‑69 (MQ=255)
cAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGt < 1:2470035/67‑1 (MQ=255)
cAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGt < 1:1576970/67‑1 (MQ=255)
cAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGt < 1:1236682/67‑1 (MQ=255)
aCGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAg > 1:1456754/1‑69 (MQ=255)
aCGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAg > 1:345126/1‑69 (MQ=255)
aCGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAg > 1:664840/1‑69 (MQ=255)
aCGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAg > 1:969390/1‑69 (MQ=255)
cGCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:68990/69‑1 (MQ=255)
cGCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:106402/69‑1 (MQ=255)
cGCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:2508572/69‑1 (MQ=255)
cGCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:1000291/69‑1 (MQ=255)
cGCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:3230018/69‑1 (MQ=255)
cGCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:3346326/69‑1 (MQ=255)
cGCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:904669/69‑1 (MQ=255)
cGCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:653889/69‑1 (MQ=255)
cGCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:1389009/69‑1 (MQ=255)
gCTTCTCTTCATAAGCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:1628954/68‑1 (MQ=255)
tctcTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGa < 1:30150/69‑1 (MQ=255)
tctcTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGa < 1:2131507/69‑1 (MQ=255)
tctcTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGa < 1:2359782/69‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:813179/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:78212/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:2948397/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:293229/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:2829794/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:694656/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:2655909/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:2339830/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:1948379/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:1110059/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:2145972/68‑1 (MQ=255)
ctTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:2085733/68‑1 (MQ=255)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:1382836/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:2986087/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:2999099/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:1837242/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:3106790/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:1756369/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:1745223/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:1710080/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:538607/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:1568447/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:2306156/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:1226374/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:702331/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:1208382/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:875375/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:1097920/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:93545/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:969029/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:2895806/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:2012901/1‑39 (MQ=38)
gCATCAAGCCAGGTAAAATCGGGCTGATTATCCGCaaaa > 1:2774205/1‑39 (MQ=38)
cAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTAt > 1:2495712/1‑69 (MQ=255)
cAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTAt > 1:35712/1‑69 (MQ=255)
aGGTAAAATCGGGCTGATTATCCGCAAAAATGCCGGTCATCAGt < 1:644028/44‑1 (MQ=38)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTc > 1:2778877/1‑68 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:1044904/69‑1 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:2183025/69‑1 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa > 1:1629877/1‑69 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:371300/69‑1 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:347830/69‑1 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:2696645/69‑1 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:3378969/69‑1 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:2347840/69‑1 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa > 1:3350809/1‑69 (MQ=255)
tAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa > 1:2195878/1‑69 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:2320531/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:82969/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:104687/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:1143350/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:2439403/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:738495/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:2289827/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:2057332/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:2526185/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:1398686/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:14500/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:455092/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcatc > 1:3341423/1‑37 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGtcat > 1:3155131/1‑36 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:2477495/68‑1 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa > 1:2560445/1‑68 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa > 1:565103/1‑68 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa > 1:2969252/1‑68 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:3376224/68‑1 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa < 1:1074049/68‑1 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa > 1:2939356/1‑68 (MQ=255)
aaaaTCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCa > 1:2973069/1‑68 (MQ=255)
aaaTCGGTCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGata < 1:527497/45‑1 (MQ=255)
gCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGa < 1:1871640/36‑1 (MQ=255)
|
TACTGCTCAAAACGCTTCTCTTCGTAAGCATCAAGCCAGGTAAAATCGGGCTGGTTATCGGCAAAAATACCGGTCATCAGTTCGATATACGGGCCGTTATTGTCGGTCA > minE/1714413‑1714521
|
| 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
