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 |
980,208 |
A→G |
80.5% |
Y33H (TAT→CAT) |
cspI ← |
cold shock protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 980,208 | 0 | A | G | 80.5%
| 248.9
/ 48.3
| 118 | Y33H (TAT→CAT) | cspI | cold shock protein |
| Reads supporting (aligned to +/- strand): ref base A (8/15); new base G (41/54); total (49/69) |
| Fisher's exact test for biased strand distribution p-value = 4.91e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.24e-01 |
Only 100 of 119 total aligned reads displayed.
AATACCAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTAAACCA > minE/980140‑980274
|
aaTACCAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATa < 1:4530235/69‑1 (MQ=255)
tACCAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGa > 1:1178598/1‑69 (MQ=255)
tACCAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACa < 1:2791768/71‑1 (MQ=255)
ccAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACaaa < 1:1904003/71‑1 (MQ=255)
ccAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACaaa < 1:4883414/71‑1 (MQ=255)
cAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAac < 1:4409717/71‑1 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACaa < 1:1403887/67‑1 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACaa < 1:4254926/67‑1 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAaca > 1:121020/1‑70 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAaca > 1:5433044/1‑70 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAaca > 1:4185147/1‑70 (MQ=255)
aaTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACaaa > 1:4621400/1‑68 (MQ=255)
aTTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGATGCTCTGAATTGCTGAGAAATAGACAAAcaca > 1:1047789/1‑71 (MQ=255)
ttCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACAt < 1:5535246/71‑1 (MQ=255)
aCTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCttt < 1:4068873/71‑1 (MQ=255)
aCTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCttt < 1:943845/71‑1 (MQ=255)
cTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTtg < 1:1760973/71‑1 (MQ=255)
tCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGAc < 1:520180/56‑1 (MQ=255)
tCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgct > 1:1177808/1‑71 (MQ=255)
tCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgct > 1:1130899/1‑71 (MQ=255)
ccTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTTCTGAGAAATGGACAAACACAt < 1:1430526/63‑1 (MQ=255)
aTTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGa > 1:2254090/1‑50 (MQ=255)
aTTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGa > 1:3612358/1‑50 (MQ=255)
aGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCttt < 1:3185473/69‑1 (MQ=255)
aGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCttt < 1:785838/69‑1 (MQ=255)
aGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCtt < 1:4769465/68‑1 (MQ=255)
aGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCtt < 1:1350852/68‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCtt < 1:1667448/54‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCtt < 1:1969854/54‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCtt < 1:1762082/54‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCAt < 1:3933525/63‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCAt < 1:3939995/63‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCAt < 1:3485250/63‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCAt < 1:1768278/63‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCAt < 1:2025014/63‑1 (MQ=255)
ttAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGc < 1:1635304/71‑1 (MQ=255)
tAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCg > 1:3901107/1‑71 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgc > 1:2417013/1‑55 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgc > 1:1380491/1‑55 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgc > 1:4136755/1‑55 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgc > 1:1883774/1‑55 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtgc > 1:3680699/1‑55 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtg > 1:940751/1‑54 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtg > 1:5287761/1‑54 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTtg > 1:1532988/1‑54 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCt > 1:1827069/1‑63 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCt > 1:1162587/1‑63 (MQ=255)
aaTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGt > 1:2682005/1‑71 (MQ=255)
aTGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGt < 1:4822840/70‑1 (MQ=255)
gTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCtt < 1:4983481/49‑1 (MQ=255)
gTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCtt < 1:1201370/49‑1 (MQ=255)
ttttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAaca > 1:792594/1‑42 (MQ=255)
ttttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtgat < 1:5266302/70‑1 (MQ=255)
ttttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtgat < 1:2937666/70‑1 (MQ=255)
ttttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtgat < 1:2931050/70‑1 (MQ=255)
ttttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtgat < 1:805262/70‑1 (MQ=255)
ttttGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGc < 1:1655403/65‑1 (MQ=255)
tttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAAcaca < 1:2691464/43‑1 (MQ=255)
tttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAAcaca < 1:4183817/43‑1 (MQ=255)
ttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtgatga < 1:2261872/70‑1 (MQ=255)
ttGAAATCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtgatga < 1:3551699/70‑1 (MQ=255)
aaTCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCa < 1:5691882/71‑1 (MQ=255)
aTCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCttt > 1:2178736/1‑42 (MQ=255)
aTCGTTGCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCa > 1:4960457/1‑70 (MQ=255)
aTCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCaa < 1:4837128/71‑1 (MQ=255)
gTTGCTCTGAATTGCTGAGAAATGGACAAACACATCt > 1:3358172/1‑37 (MQ=255)
tGCTCTGAATTGCTGAGAAATGGACAAACACATCttt < 1:3266698/37‑1 (MQ=255)
tGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCttt > 1:5331891/1‑49 (MQ=255)
gCTCTGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCt < 1:3456392/70‑1 (MQ=255)
ctctGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCttt > 1:4420352/1‑71 (MQ=255)
ctGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtga > 1:2937930/1‑53 (MQ=255)
ctGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtga > 1:4610993/1‑53 (MQ=255)
ctGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCttttt > 1:104868/1‑71 (MQ=255)
tGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTc < 1:3741904/45‑1 (MQ=255)
tGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCttttt > 1:128643/1‑70 (MQ=255)
tGAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCATGATGAAACCaaa < 1:5561120/62‑1 (MQ=255)
tGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGt < 1:5022575/50‑1 (MQ=255)
gAATTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCaaa > 1:4012266/1‑61 (MQ=255)
aaTTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCttttt < 1:1508089/68‑1 (MQ=255)
aaTTGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCttttt < 1:3675894/68‑1 (MQ=255)
aaTTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCttt > 1:3194578/1‑42 (MQ=255)
aaTTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTc < 1:2949205/69‑1 (MQ=255)
aaTTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAg < 1:4446119/71‑1 (MQ=255)
ttGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGtgatg > 1:2411473/1‑50 (MQ=255)
ttGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCa < 1:4550533/68‑1 (MQ=255)
ttGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCa < 1:5582488/68‑1 (MQ=255)
ttGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCa < 1:2919994/68‑1 (MQ=255)
ttGCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCa < 1:4578964/68‑1 (MQ=255)
gCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAAc > 1:5680592/1‑58 (MQ=255)
gCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGt > 1:3022718/1‑70 (MQ=255)
gCTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGt > 1:3491141/1‑70 (MQ=255)
cTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCttttt < 1:380875/63‑1 (MQ=255)
cTGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTa < 1:3922659/71‑1 (MQ=255)
cTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCa > 1:2389092/1‑65 (MQ=255)
tGAGAAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCttttt < 1:3410184/62‑1 (MQ=255)
gagaAATGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTaaa > 1:1216871/1‑71 (MQ=255)
gaAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGt < 1:4193400/39‑1 (MQ=255)
aaaTGGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTAAACCa < 1:2167906/71‑1 (MQ=255)
aaaTAGACAAACACATCTTTGCTGCCATCTTTCGGCg > 1:4403533/1‑37 (MQ=255)
aaaTAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTAAAc > 1:220450/1‑69 (MQ=255)
|
AATACCAAATTCAACTTCCTGATTCTCAGTTAATGTTTTGAAATCGTTGCTCTGAATTGCTGAGAAATAGACAAACACATCTTTGCTGCCATCTTTCGGCGTGATGAAACCAAAACCTTTTTCAGGGTTAAACCA > minE/980140‑980274
|
| 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
