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 |
1,015,280 |
G→A |
27.1% |
H263H (CAC→CAT) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,280 | 0 | G | A | 27.1%
| 165.0
/ 62.7
| 100 | H263H (CAC→CAT) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base G (43/29); new base A (14/13); total (57/43) |
| Fisher's exact test for biased strand distribution p-value = 5.02e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.27e-01 |
CCAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGTTTTAAGGTTC > minE/1015213‑1015349
|
ccAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGc > 1:5649973/1‑71 (MQ=255)
ccAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGc > 1:4095523/1‑71 (MQ=255)
cAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCt > 1:4954005/1‑71 (MQ=255)
cAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCt < 1:5475389/71‑1 (MQ=255)
aGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCt > 1:5513014/1‑70 (MQ=255)
aGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCt > 1:3869904/1‑70 (MQ=255)
gACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCa < 1:2054361/71‑1 (MQ=255)
ccAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCAtt < 1:3362463/71‑1 (MQ=255)
ccAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCAtt > 1:7295/1‑71 (MQ=255)
cAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTc > 1:4611896/1‑71 (MQ=255)
cAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTc > 1:1532803/1‑71 (MQ=255)
gATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCt > 1:4712877/1‑71 (MQ=255)
ttttGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTc < 1:1593021/71‑1 (MQ=255)
tttGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTcc > 1:3523973/1‑71 (MQ=255)
ttGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTcc < 1:4880941/70‑1 (MQ=255)
ttGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTcc > 1:2950151/1‑70 (MQ=255)
ttGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCg > 1:1366151/1‑71 (MQ=255)
gcTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCa < 1:538864/57‑1 (MQ=255)
ttCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCTTGCTCAt < 1:3681184/56‑1 (MQ=255)
ttCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCt < 1:1386262/53‑1 (MQ=255)
ttCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCAt < 1:4761850/56‑1 (MQ=255)
ttCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCAt < 1:3321426/56‑1 (MQ=255)
ttCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCAt < 1:1211112/56‑1 (MQ=255)
ttCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTgg > 1:5237853/1‑69 (MQ=255)
ttCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTgg > 1:5049742/1‑69 (MQ=255)
cGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGt > 1:5597289/1‑71 (MQ=255)
cGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGt > 1:825667/1‑71 (MQ=255)
cGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGt > 1:841212/1‑71 (MQ=255)
cGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGt > 1:1156936/1‑71 (MQ=255)
ttccagcagTTCCTGTTCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAg < 1:2850847/66‑1 (MQ=255)
ccagcagTTCCTGTTCCAGCTGGACATCGCGGAACGCCTGACCATGTTc > 1:659490/2‑49 (MQ=255)
cagcagTTCCTGTTCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtca < 1:3529388/70‑1 (MQ=255)
aGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGTCAGTtcat < 1:462331/70‑1 (MQ=255)
aGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtcat > 1:2260021/1‑70 (MQ=255)
aGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtcat < 1:3075955/70‑1 (MQ=255)
aGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtcat > 1:1069328/1‑70 (MQ=255)
aGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCCTTGGCAGTtcat < 1:3081069/70‑1 (MQ=255)
gCAGTTCCTGTTCCAGCTGGATATCGCGGAACGCCTGACCATGTTCGTTCCCtt > 1:31893/1‑54 (MQ=12)
gCAGTTCCTGTTCCAGCTGGATATCGCGGAACGCCTGACCATGTTCGTTCCCtt > 1:4980568/1‑54 (MQ=12)
gCAGTTCCTGTTCCAGCTGGATATCGCGGAACGCCTGACCATGTTCGTTCCCtt > 1:1138379/1‑54 (MQ=12)
gCAGTTCCTGTTCCAGCTGGATATCGCGGAACGCCTGACCATGTTCGTTCCCtt > 1:5273397/1‑54 (MQ=12)
gCAGTTCCTGTTCCAGCTGGATATCGCGGAACGCCTGACCATGTTCGTTCCCtt > 1:890307/1‑54 (MQ=12)
gCAGTTCCTGTTCCAGCTGGATATCGCGGAACGCCTGACCATGTTCGTTCCCtt > 1:4227379/1‑54 (MQ=12)
gCAGTTCCTGTTCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtcatcg < 1:752292/71‑2 (MQ=255)
aaTTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtcatca > 1:2610039/1‑69 (MQ=255)
ttCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCtt < 1:5444176/50‑1 (MQ=255)
ttCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCtt < 1:3602112/50‑1 (MQ=255)
cTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTAt > 1:750885/1‑71 (MQ=255)
ttttCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTAtt > 1:3862745/1‑70 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTTATCGTAATagt < 1:17031/68‑3 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTaa > 1:3190261/1‑63 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTAATagtg < 1:2284907/69‑4 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTAATagtg < 1:4404743/69‑4 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTAATagtg < 1:5569910/69‑4 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTAATagt < 1:4736138/68‑3 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTAATagt < 1:4292728/68‑3 (MQ=255)
ttCCAGCTGGACATCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTAATagt < 1:4515649/68‑3 (MQ=255)
tCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTcgc > 1:983451/1‑71 (MQ=255)
ttCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTcc < 1:1152013/40‑1 (MQ=255)
ttCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTcc < 1:3129600/40‑1 (MQ=255)
ttCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTcc < 1:34462/40‑1 (MQ=255)
ttCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTcc < 1:4043971/40‑1 (MQ=255)
ttCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAg > 1:4799669/1‑71 (MQ=255)
ccACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAg > 1:3122701/1‑46 (MQ=255)
ccACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtcatca > 1:5571181/1‑53 (MQ=255)
ccACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGc > 1:404647/1‑70 (MQ=255)
ccACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGc > 1:3446307/1‑70 (MQ=255)
aTCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAg > 1:4489761/1‑52 (MQ=255)
aTCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGtt > 1:4543378/1‑71 (MQ=255)
aTCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtc < 1:5339815/45‑1 (MQ=255)
aTCGCGGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtc < 1:3609211/45‑1 (MQ=255)
tCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGt > 1:1574021/1‑35 (MQ=255)
tCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTtcat < 1:4574071/46‑1 (MQ=255)
tCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGttt < 1:694299/71‑1 (MQ=255)
tCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGttt < 1:3077542/71‑1 (MQ=255)
tCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGttt < 1:1834510/71‑1 (MQ=255)
tCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGttt > 1:4235186/1‑71 (MQ=255)
cgcgGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGtt > 1:476484/1‑42 (MQ=255)
cgcgGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGtt > 1:524866/1‑42 (MQ=255)
cgcgGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGtt > 1:751471/1‑42 (MQ=255)
cgcgGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGtt > 1:4184905/1‑42 (MQ=255)
cgcgGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGt > 1:4101945/1‑41 (MQ=25)
cgcgGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtcatc > 1:2080178/1‑46 (MQ=255)
cgcgGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtcat > 1:5415063/1‑45 (MQ=255)
gcgGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGaa > 1:2008294/1‑61 (MQ=255)
gcgGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTa > 1:5257797/1‑48 (MQ=255)
gcgGAACGCCTGACCATGTTCGTTACCTTCCGTCGGc > 1:5326464/1‑37 (MQ=16)
gcgGAACGCCCGACCATGTTCGTTCCCTTCCGTCGGCAGTTCATCGTa > 1:3393111/1‑48 (MQ=19)
cgGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCAc < 1:2302416/71‑1 (MQ=255)
cgGAACGCCTGACCATGTTCGTTCCCTTCCGTCGGCAGTtcat < 1:5137597/43‑1 (MQ=25)
ggAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAg < 1:2423036/47‑1 (MQ=255)
aaCGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTa > 1:2587117/1‑47 (MQ=255)
aaCGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTa > 1:1589301/1‑47 (MQ=255)
aaCGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTa > 1:5109643/1‑47 (MQ=255)
gCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGtttt < 1:5389410/71‑1 (MQ=255)
ccTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGtttt > 1:2418531/1‑70 (MQ=255)
ccTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGtttt < 1:4389633/70‑1 (MQ=255)
ccTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGtttt > 1:1930855/1‑70 (MQ=255)
aCCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGTTTTAAGGt < 1:3751543/71‑1 (MQ=255)
cGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGTTTTAAGGTTc < 1:1029168/71‑1 (MQ=255)
|
CCAGACCAAGATTTTGCGCTTCGATCAGCAATTCTTTTTCCAGTTCCACATCGCGGAACGCCTGACCGTGCTCATTCCCTTCCGTTGGCAGTTCATCATAGTATTTCGCGGAAGCCAGTTTCACCGTTTTAAGGTTC > minE/1015213‑1015349
|
| 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
