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 |
1,449,160 |
C→T |
49.5% |
R522R (CGC→CGT) |
atoS → |
sensory histidine kinase in two‑component regulatory system with AtoC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,449,160 | 0 | C | T | 49.5%
| 0.1
/ 101.8
| 111 | R522R (CGC→CGT) | atoS | sensory histidine kinase in two‑component regulatory system with AtoC |
| Reads supporting (aligned to +/- strand): ref base C (22/34); new base T (18/37); total (40/71) |
| Fisher's exact test for biased strand distribution p-value = 5.54e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.34e-01 |
Only 100 of 111 total aligned reads displayed.
CAAACAGGTACTACTGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTGG > minE/1449094‑1449222
|
cAAACAGGTACTACTGAATATCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTAt > 1:3013087/1‑69 (MQ=255)
cAAACAGGTACTACTGAATATCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTAt > 1:1533919/1‑69 (MQ=255)
cAAACAGGTACTACTGAATATCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTAt > 1:2534678/1‑69 (MQ=255)
cAAACAGGTACTACTGAATATCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTAt > 1:1168308/1‑69 (MQ=255)
ctactGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTg > 1:1153204/1‑68 (MQ=255)
actTAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:2904150/1‑60 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:2408954/1‑60 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa < 1:1582214/60‑1 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa < 1:1610935/60‑1 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa < 1:1712866/60‑1 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:1469585/1‑60 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa < 1:1946323/60‑1 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:2173607/1‑60 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:2390532/1‑60 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:2410253/1‑60 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:299007/1‑60 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:2551468/1‑60 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa < 1:510765/60‑1 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa < 1:505401/60‑1 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:2858956/1‑60 (MQ=255)
actGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGc < 1:2886770/68‑1 (MQ=255)
actGAATATCCTGATCAATGACGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCa > 1:101861/1‑60 (MQ=255)
gAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:1663734/67‑1 (MQ=255)
gAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:1495167/67‑1 (MQ=255)
gAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:761387/67‑1 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:12699/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:2469579/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:2590608/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:510310/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:59150/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:2236183/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:595410/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:2796989/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:2083292/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:1110414/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:195473/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:1936701/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTata > 1:3152604/1‑66 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:2844645/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:1071942/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:2941292/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:3285189/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:1194441/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:2978200/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:102179/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:1230833/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:3265581/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:1012612/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:3250917/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:1448491/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:1957157/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:1963489/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:1983580/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:2372602/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:235193/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:2342260/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:2071841/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:848917/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTat < 1:611154/67‑2 (MQ=255)
tatCCTGATCAATGCCGTCCAGGCTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGCCAGTat < 1:3077125/67‑2 (MQ=255)
atCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGc < 1:1281718/69‑1 (MQ=255)
tCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGc > 1:55848/1‑68 (MQ=255)
tCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCg > 1:658808/1‑69 (MQ=255)
tCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCg > 1:84124/1‑69 (MQ=255)
tCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCg > 1:1240268/1‑69 (MQ=255)
tCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCg > 1:137343/1‑69 (MQ=255)
cTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGAc < 1:2676514/69‑1 (MQ=255)
cTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGAc < 1:184743/69‑1 (MQ=255)
gATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGACt < 1:2590189/68‑1 (MQ=255)
cAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGACTcac > 1:943828/1‑68 (MQ=255)
tGCCGTCCAGGCTATCAGTGCACGAGTGAAAATTCGTATTCGAACCTGGCAGTat < 1:1761224/55‑2 (MQ=25)
ccGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:2755652/50‑1 (MQ=255)
ccGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:1134164/50‑1 (MQ=255)
ccGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:2886098/50‑1 (MQ=255)
ccGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:2488233/50‑1 (MQ=255)
ccGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:3103783/50‑1 (MQ=255)
ccGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:738711/50‑1 (MQ=255)
ccGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCaa < 1:2403168/50‑1 (MQ=255)
ccGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGACTCACAACAg > 1:2420907/1‑68 (MQ=255)
ccGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGACTCACAACAg > 1:2135882/1‑68 (MQ=255)
cTATCAGTGCACTAGGGAAAATTCGTATTCGAACCTGGCAGTATAGCGACTCGCAACAGGCCATTTCGa < 1:263251/69‑1 (MQ=25)
cTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTATAGCGACTCGCAACAGGCCATTTCGa < 1:2784673/69‑1 (MQ=37)
cTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTATAGCGACTCGCAACAGGCCATTTCGa < 1:2760562/69‑1 (MQ=37)
cTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTATAGCGACTCGCAACAGGCCATTTCGa < 1:2646710/69‑1 (MQ=37)
cTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTATAGCGACTCGCAACAGGCCATTTCGa < 1:2618777/69‑1 (MQ=37)
cTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTATAGCGACTCGCAACAGGCCATTTCGa < 1:2198203/69‑1 (MQ=37)
cTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTATAGCGACTCGCAACAGGCCATTTCGa < 1:2143471/69‑1 (MQ=37)
cTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTATAGCGACTCGCAACAGGCCATTTCGa < 1:1753491/69‑1 (MQ=37)
cTATCAGTGCACGAGGGAAAATTCGTATTCGAACCTGGCAGTATAGCGACTCGCAACAGGCCATTTCGa < 1:882404/69‑1 (MQ=37)
cACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACa < 1:1252678/69‑1 (MQ=255)
cACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACa < 1:650196/69‑1 (MQ=255)
aaTTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTgg < 1:958232/69‑1 (MQ=255)
aaTTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTgg < 1:321168/69‑1 (MQ=255)
aaTTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTgg < 1:1425343/69‑1 (MQ=255)
aaTTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTgg < 1:1553342/69‑1 (MQ=255)
aaTTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTgg < 1:819696/69‑1 (MQ=255)
aaTTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTgg < 1:1744162/69‑1 (MQ=255)
aaTTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTgg < 1:759604/69‑1 (MQ=255)
aaTTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTgg < 1:226194/69‑1 (MQ=255)
aaTTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTgg < 1:3197472/69‑1 (MQ=255)
|
CAAACAGGTACTACTGAATATCCTGATCAATGCCGTCCAGGCTATCAGCGCACGAGGGAAAATTCGCATTCAAACCTGGCAATACAGCGACTCACAACAGGCCATTTCGATAGAGGACAACGGCTGTGG > minE/1449094‑1449222
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
