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 |
626,252 |
T→C |
34.6% |
S55S (AGT→AGC) |
ycaQ → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 626,252 | 0 | T | C | 34.6%
| 50.8
/ 42.4
| 75 | S55S (AGT→AGC) | ycaQ | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (41/8); new base C (21/5); total (62/13) |
| Fisher's exact test for biased strand distribution p-value = 7.57e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGAGTCTCT > minE/626195‑626314
|
aaCGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCata > 1:1669969/1‑63 (MQ=255)
aaCGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCata > 1:3321397/1‑63 (MQ=255)
aaCGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCata > 1:1110899/1‑63 (MQ=255)
aaCGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCata > 1:1136334/1‑63 (MQ=255)
aaCGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCata > 1:1580546/1‑63 (MQ=255)
aaCGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCata > 1:814954/1‑63 (MQ=255)
aaCGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCata > 1:2045079/1‑63 (MQ=255)
aaCGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCata > 1:2369220/1‑63 (MQ=255)
aaCGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCata > 1:3061850/1‑63 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:298074/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:3319018/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:3182070/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:984983/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:2471243/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:2915016/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:2808785/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:1004560/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:1624778/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:436497/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:1452750/1‑67 (MQ=255)
ctcCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCtt > 1:889318/1‑67 (MQ=255)
tGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAgtcgtc > 1:3257880/1‑69 (MQ=255)
tGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAgtcgtc > 1:133103/1‑69 (MQ=255)
tGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAgtcgt > 1:564396/1‑68 (MQ=255)
tCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCt > 1:3436353/1‑68 (MQ=255)
tCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCt > 1:966354/1‑68 (MQ=255)
tCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCt > 1:2862215/1‑68 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAgccg > 1:1685817/1‑55 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTAt > 1:1746876/1‑68 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:2738872/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:594451/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:2997019/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:3017598/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:516147/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:484176/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:3362860/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:3420740/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:2237045/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:131070/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:1819781/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:1523200/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:1731285/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:1393987/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:2234190/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:2307125/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:1093865/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc > 1:2577171/1‑69 (MQ=255)
aaaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTCTCAGCCGTCTGGGAGATTATc > 1:2102096/1‑69 (MQ=255)
aaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGTGAGATTATc < 1:3004942/68‑1 (MQ=255)
aaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc < 1:885545/68‑1 (MQ=255)
aaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc < 1:533575/68‑1 (MQ=255)
aaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc < 1:2498651/68‑1 (MQ=255)
aaTCGATACCATCAATATTGTTGTCCGTAGCCCATATCTGGTGCTTTTCAGCCGTCTGGGAGATTATc < 1:5181/68‑1 (MQ=255)
tCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTg > 1:3360344/1‑69 (MQ=255)
tCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTg > 1:867053/1‑69 (MQ=255)
tCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTg > 1:1427952/1‑69 (MQ=255)
aaTATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTg > 1:349397/1‑69 (MQ=255)
aaTATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTg > 1:757102/1‑69 (MQ=255)
aaTATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTg > 1:3272872/1‑69 (MQ=255)
aaTATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTg > 1:2216587/1‑69 (MQ=255)
ttgttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATg > 1:1306717/1‑69 (MQ=255)
ttgttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATg > 1:1066277/1‑69 (MQ=255)
ttgttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATg > 1:2730976/1‑69 (MQ=255)
ttgttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATg > 1:1653515/1‑69 (MQ=255)
ttgttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATg > 1:3324505/1‑69 (MQ=255)
ttgttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATg > 1:3293259/1‑69 (MQ=255)
ttgttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATg > 1:2808472/1‑69 (MQ=255)
gttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGa < 1:1999733/68‑1 (MQ=255)
gttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGa < 1:2149632/68‑1 (MQ=255)
gttgCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGa < 1:2574915/68‑1 (MQ=255)
gCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGAGtc < 1:3352669/68‑1 (MQ=255)
gCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGAGtc < 1:3325009/68‑1 (MQ=255)
gCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGAGtc < 1:1357729/68‑1 (MQ=255)
gCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGAGtc < 1:2382793/68‑1 (MQ=255)
cGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGAGTctct < 1:1269484/68‑1 (MQ=255)
|
AACGATCTCCCGCATGTCCTTGCTGCAAATCGATACCATCAATATTGTTGCCCGTAGTCCATATCTGGTGCTTTTCAGTCGTCTGGGAAATTATCCTGCCCAGTGGCTGGATGAGTCTCT > minE/626195‑626314
|
| 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
