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 |
1,439,333 |
A→C |
29.0% |
A323A (GCT→GCG) |
ompC ← |
outer membrane porin protein C |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,439,333 | 0 | A | C | 29.0%
| 248.3
/ 139.7
| 162 | A323A (GCT→GCG) | ompC | outer membrane porin protein C |
| Reads supporting (aligned to +/- strand): ref base A (67/48); new base C (14/33); total (81/81) |
| Fisher's exact test for biased strand distribution p-value = 1.67e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
Only 100 of 177 total aligned reads displayed.
CTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTA > minE/1439264‑1439399
|
ggTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCa > 1:3062769/1‑71 (MQ=255)
ggTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCa > 1:5450907/1‑71 (MQ=255)
ggTTGTCGTCCAGCAGGTTGATTTTGTAGCCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCa > 1:1678382/1‑71 (MQ=255)
tGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCAcc > 1:1029685/1‑70 (MQ=255)
gttgtcCAGCAGGTTGATTTTGTAATCAACATAGGTGGACATGTTTTTGTTGAAGTAGTAGGTCGCACcaa < 1:3520931/68‑1 (MQ=18)
gtcgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaa > 1:2572929/1‑71 (MQ=255)
gtcgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaa > 1:5410912/1‑71 (MQ=255)
gtcgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACca < 1:266456/70‑1 (MQ=255)
tcgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaa < 1:857501/70‑1 (MQ=255)
tcgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaa < 1:2556597/70‑1 (MQ=255)
cgtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaaca > 1:3199365/1‑71 (MQ=255)
catcCAACAGGTTGATTTTATAGTCAACGTAGGTGGACATGTTTTTATTGAAATAGTAAGTCGCGCca < 1:2721209/66‑1 (MQ=17)
gtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaacat > 1:4390068/1‑71 (MQ=255)
gtcCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaacat > 1:5407005/1‑71 (MQ=255)
atcCAACAGGTTGATTTTATAGTCAACGTAGGTGGACATGTTTTTATTGAAATAGTAAGTCGCGCcaatat < 1:5497543/70‑1 (MQ=17)
atcCAACAGGTTGATTTTATAGTCAACGTAGGTGGACATGTTTTTATTGAAATAGTAAGTCGCGCcaata < 1:2830113/69‑3 (MQ=17)
cagcagGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAgtaggtag > 1:1146778/1‑59 (MQ=255)
cagcagGTTGATTTTGTAATCAACATAGGTGGACATGTTTTTGTTGAAGTAGTAGGTCGCACcaatatcaa > 1:1837273/1‑71 (MQ=18)
cagcagGTTGATTTTGTAATCAACATAGGTGGACATGTTTTTGTTGAAGTAGTAGGTCGCACcaatatca < 1:4983761/70‑1 (MQ=17)
caacagGTTGATTTTATAGTCAACGTAGGTGGACATGTTTTTATTGAAATAGTAAGTCGCGcc < 1:5209956/60‑1 (MQ=14)
gcagGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatcaaca > 1:3324712/1‑71 (MQ=255)
gcagGTTGATTTTGTAATCAACATAGGTGGACATGTTTTTGTTGAAGTAGTAGGTCGCACcaatatcaacg < 1:5693118/71‑2 (MQ=17)
acagGTTGATTTTATAGTCAACGTAGGTGTACATGTTTTTATTGAAATAGTAAGTCGCGCcaat < 1:4093247/63‑2 (MQ=17)
cagGTTGATTTTATAGTCAACGTAGGTGGACATGTTTTTATTGAAATAGTAAGTCGCGCcaatat > 1:2701219/1‑65 (MQ=17)
agGTTGATTTTGTAATCAACATAGGTGGACATGTTTTTGTTGAAGTAGTAGGTCGCACCAATATCAACgta < 1:5221442/71‑1 (MQ=17)
ggTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACatat < 1:3344538/71‑1 (MQ=255)
gTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatcaacat < 1:3945616/68‑1 (MQ=255)
gTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatcaacat < 1:1992361/68‑1 (MQ=255)
gTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATAtt > 1:1943494/1‑71 (MQ=255)
gTTGATTTTGTAATCAACATAGGTGGACATGTTTTTGTTGAAGTAGTAGGTCGCAcc < 1:93082/57‑1 (MQ=14)
ttGATTTTATAGTCAACGTAGGTGGACATGTTTTTATTGAAATAGTAAGTCGCGCCAATATCGGCGTAttt < 1:4368525/71‑1 (MQ=9)
tGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaa > 1:151752/1‑57 (MQ=255)
tGATTTTGTAATCAACATAGGTGGATATGTTTTTGTTGAAGTAGTAGGTCGCACcaa > 1:4956813/1‑57 (MQ=14)
gATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATAttt > 1:2546674/1‑69 (MQ=255)
gATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATAttt > 1:3398675/1‑69 (MQ=255)
gATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATAttt > 1:5196568/1‑69 (MQ=255)
gATTTTGTAATCAACATAGGTGGACATGTTTTTGTTGAAGTAGTAGGTCGCACCAATATCAACGTAtttaa > 1:77945/1‑69 (MQ=17)
aTTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAg < 1:40485/71‑1 (MQ=255)
aTTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAg < 1:894945/71‑1 (MQ=255)
aTTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAg < 1:1056200/71‑1 (MQ=255)
aTTTTGTAATCAACATAGGTGGACATGTTTTTGTTGAAGTAGTAGGTCGCACCAATATCAACGTAtttaac > 1:4280307/1‑68 (MQ=17)
aTTTTGTAATCAACATAGGTGGACATGTTTTTGTTGAAGTAGTAGGTCGCACCAATATCAACGTAtttaac > 1:3995406/1‑68 (MQ=17)
ttttATAGTCAACGTAGGTGGACATGTTTTTATTGAAATAGTAAGTCGc < 1:4152005/49‑1 (MQ=14)
tttATAGTCAACGTAGGTGGACATGTTTTTATTGAAATAGTAAGTCGc < 1:377474/48‑1 (MQ=14)
ttGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCAcc < 1:2877197/50‑1 (MQ=255)
tGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATAttt < 1:5602575/64‑1 (MQ=255)
gTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACatat > 1:2402464/1‑61 (MQ=255)
tAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCa > 1:4759256/1‑64 (MQ=255)
tAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCa > 1:3442550/1‑64 (MQ=255)
tCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatcaac < 1:617216/53‑1 (MQ=255)
tCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatcaac < 1:3838737/53‑1 (MQ=255)
aaCGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAg > 1:1406370/1‑60 (MQ=255)
aaCGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgt > 1:5060699/1‑71 (MQ=255)
aaCGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgt > 1:2936823/1‑71 (MQ=255)
aaCGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtc > 1:4478032/1‑69 (MQ=255)
cGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtcg > 1:695171/1‑71 (MQ=255)
cGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtcg > 1:3828426/1‑71 (MQ=255)
gTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtcgt > 1:242220/1‑71 (MQ=255)
gTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtcgt > 1:3308875/1‑71 (MQ=255)
gTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtcgt > 1:1200553/1‑71 (MQ=255)
tAGGTGGAGATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCt < 1:4724332/63‑1 (MQ=255)
tAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGa > 1:5536702/1‑58 (MQ=255)
gTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTa < 1:5314955/71‑1 (MQ=255)
gTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTa < 1:2999684/71‑1 (MQ=255)
tGGACATGTTTTTGTTGAAGTAGTAGGTCGCACcaatatcaacg < 1:2629923/44‑2 (MQ=17)
tGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTa < 1:210962/70‑1 (MQ=255)
tGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAg < 1:5533531/71‑1 (MQ=255)
tGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAg < 1:2912158/71‑1 (MQ=255)
gACATGTTTTTGTTGAAGTAGTAGGTCGCACcaatatc < 1:755996/38‑1 (MQ=17)
gACATGTTTTTGTTGAAGTAGTAGGTCGCACcaatatc < 1:4858451/38‑1 (MQ=17)
aCATGTTTTTGTTGAAGTAGTAGGTAGCACcaacatcaaca < 1:4563086/41‑1 (MQ=255)
aTGTTTTTGTTGAAGTAGTAGGTCGCACcaatatcaacg < 1:1078902/39‑2 (MQ=18)
aTGTTTTTGTTGAAGTAGTAGGTAGCACcaacatcaaca < 1:2665496/39‑1 (MQ=255)
aTGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTc > 1:1873379/1‑45 (MQ=255)
aTGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTc < 1:2126452/45‑1 (MQ=255)
aTGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCa > 1:1789429/1‑69 (MQ=255)
aTGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCa > 1:3183673/1‑69 (MQ=255)
gTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAg > 1:467350/1‑45 (MQ=255)
gTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATc < 1:1599615/51‑1 (MQ=255)
tttttGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCAc < 1:1300939/67‑1 (MQ=255)
tttttGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCAc < 1:687909/67‑1 (MQ=255)
tttttGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGAcc > 1:4690014/1‑71 (MQ=255)
tttGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTc < 1:67730/40‑1 (MQ=255)
tttGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtc > 1:1520426/1‑54 (MQ=255)
tttGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtc > 1:1249158/1‑54 (MQ=255)
tttGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtc > 1:4651251/1‑54 (MQ=255)
tttGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgtc > 1:4915154/1‑54 (MQ=255)
tttGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGAcc > 1:362538/1‑69 (MQ=255)
ttgttgAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgt > 1:4215523/1‑52 (MQ=255)
ttgttgAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTtcgt > 1:3744766/1‑52 (MQ=255)
aaGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGttttt < 1:1576570/71‑1 (MQ=255)
aaGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGtttt > 1:712379/1‑70 (MQ=255)
tagtagGTAGCACCAACATCAACATATTTCAGGATATCTtcgtcgt < 1:2266937/46‑1 (MQ=255)
tagtagGTAGCACCAACATCAACATATTTCAGGATATCTtcgtcgt < 1:1754303/46‑1 (MQ=255)
agtagGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCt > 1:4183742/1‑71 (MQ=255)
gtaggtagCACCAACATCAACATATTTCAGGATATCTtcgtcgtcg > 1:1704965/1‑46 (MQ=255)
gtaggtagCACCAACATCAACATATTTCAGGATATCTTcgtcgtcgt < 1:3049922/47‑1 (MQ=255)
taggtagCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCttt < 1:1338689/71‑1 (MQ=255)
ggtagCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTa < 1:4879616/70‑1 (MQ=255)
agCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGAccc < 1:4032382/52‑1 (MQ=255)
|
CTGGTTGTCGTCCAGCAGGTTGATTTTGTAGTCAACGTAGGTGGACATGTTTTTGTTGAAGTAGTAGGTAGCACCAACATCAACATATTTCAGGATATCTTCGTCGTCGTAGCCACGACCCAGGTTTTTACCTTTA > minE/1439264‑1439399
|
| 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
