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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,703,672 |
G→A |
33.3% |
A355T (GCC→ACC) |
aroB → |
3‑dehydroquinate synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,703,672 | 0 | G | A | 33.3%
| 70.1
/ 50.1
| 57 | A355T (GCC→ACC) | aroB | 3‑dehydroquinate synthase |
| Reads supporting (aligned to +/- strand): ref base G (18/20); new base A (8/11); total (26/31) |
| Fisher's exact test for biased strand distribution p-value = 7.82e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.54e-01 |
ATTCTTCCGTTGGCAATTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTCTATTAGC > minE/2703606‑2703739
|
aTTCTTCCGTTGGCAATTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCAt > 1:1010129/1‑71 (MQ=255)
aTTCTTCCGTTGGCAATTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCAt > 1:1079622/1‑71 (MQ=255)
aTTCTTCCGTTGGCAATTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACACCAt < 1:1395816/71‑1 (MQ=255)
cttcCGTTGGCAATTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGc > 1:1291147/1‑71 (MQ=255)
cttcCGTTGGCAATTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACACCATTGc > 1:1167882/1‑71 (MQ=255)
ccGTTGGCAATTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACACCATTGCCg < 1:1158156/70‑1 (MQ=255)
cAATTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCaa < 1:1538323/71‑1 (MQ=255)
aaTTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACACCATTGCCGATTGTCAAt < 1:694697/71‑1 (MQ=255)
ggTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAg > 1:1454045/1‑70 (MQ=255)
ggTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACACCATTGCCGATTGTCAATCAGc > 1:865339/1‑71 (MQ=255)
agagTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTa < 1:1943158/70‑1 (MQ=255)
agagTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACACCATTGCCGATTGTCAATCAGCGTaa > 1:766469/1‑71 (MQ=255)
gagTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTaac < 1:1816978/71‑1 (MQ=255)
gTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACACCATTGCCGATTGTCAATCAGCGTaacaa > 1:1714029/1‑71 (MQ=255)
gTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGATCTTAACGCCATTGCCGATTGTCaa < 1:1897727/59‑1 (MQ=255)
tGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGc < 1:2152325/42‑1 (MQ=255)
tGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGc < 1:1805253/42‑1 (MQ=255)
tGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATc > 1:1075578/1‑60 (MQ=255)
tGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATc > 1:1099415/1‑60 (MQ=255)
gTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCTATTGTCAATCAGCGTAACAACAAGa < 1:475335/71‑1 (MQ=255)
gTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGa < 1:1114196/71‑1 (MQ=255)
ttCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAAcaacaa < 1:653270/68‑1 (MQ=255)
ttCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGa < 1:854709/70‑1 (MQ=255)
tCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACACCATTGCCGATTGTCAATCAGCGTaac > 1:1398266/1‑62 (MQ=255)
cGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAacaaca > 1:1873565/1‑65 (MQ=255)
aGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTc < 1:916186/71‑1 (MQ=255)
aGCGGCGTTTCGCACGAGCTTGTTCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGt > 1:1146193/1‑70 (MQ=255)
gcggcgTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGt > 1:2018258/1‑69 (MQ=255)
gcggcgTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGGCa < 1:1211077/71‑1 (MQ=255)
gcgTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGc > 1:1556049/1‑71 (MQ=255)
cgTTTCGCACGAGCTTGTTCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGcc < 1:260424/71‑1 (MQ=255)
tCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCt > 1:1936661/1‑70 (MQ=255)
tCGCACGAGCTTGTTCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCt > 1:430234/1‑70 (MQ=255)
cGCACGAGCTTGTTCTTAACACCATTGCCTATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCtt < 1:1733340/70‑1 (MQ=255)
cGAGCTTGTTCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGa > 1:442354/1‑51 (MQ=255)
cGAGCTTGTTCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCaa < 1:348672/71‑1 (MQ=255)
gAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAg < 1:73579/71‑1 (MQ=255)
gAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAg < 1:1800314/71‑1 (MQ=255)
gCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCg < 1:273851/71‑1 (MQ=255)
gTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCa < 1:1719619/63‑1 (MQ=255)
gTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTc > 1:1327563/1‑70 (MQ=255)
gTTCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGt < 1:81594/69‑1 (MQ=255)
gTTCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTc < 1:1239074/70‑1 (MQ=255)
gTTCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTc < 1:1000676/70‑1 (MQ=255)
gTTCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTc < 1:1590160/70‑1 (MQ=255)
ttCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGt < 1:326920/48‑1 (MQ=255)
ttCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGt < 1:1917889/48‑1 (MQ=255)
ttCTTAACACCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAgg < 1:1774502/47‑1 (MQ=255)
cTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTCTa > 1:2191021/1‑69 (MQ=255)
cTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTCTAt < 1:271293/70‑1 (MQ=255)
cTTAACGACATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAg > 1:151664/1‑49 (MQ=255)
ttAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTa > 1:1603232/1‑56 (MQ=255)
aaCGCCATTGCCTATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTCTAtt < 1:213269/68‑1 (MQ=255)
aaCGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAg > 1:1931198/1‑41 (MQ=255)
aaCGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAg > 1:917216/1‑41 (MQ=255)
aaCGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTCTATTAGc > 1:328447/1‑71 (MQ=255)
aaCGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTCTATTAGc > 1:1142225/1‑71 (MQ=255)
|
ATTCTTCCGTTGGCAATTGGTAAGAGTGAAGTTCGCAGCGGCGTTTCGCACGAGCTTGTTCTTAACGCCATTGCCGATTGTCAATCAGCGTAACAACAAGAAAGGTCAGGCCGCTTATCAAGCGGTCTATTAGC > minE/2703606‑2703739
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
