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 |
2,774,792 |
G→A |
28.0% |
R333R (CGG→CGA) |
aceK → |
isocitrate dehydrogenase kinase/phosphatase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,774,792 | 0 | G | A | 28.0%
| 75.8
/ 27.9
| 71 | R333R (CGG→CGA) | aceK | isocitrate dehydrogenase kinase/phosphatase |
| Reads supporting (aligned to +/- strand): ref base G (18/33); new base A (8/12); total (26/45) |
| Fisher's exact test for biased strand distribution p-value = 7.87e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.99e-01 |
AGTTCATTGAAGCGCCGGGTATTCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTCTGCCGCTCACG > minE/2774725‑2774850
|
aGTTCATTGAAGCGCCGGGTATTCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCggg < 1:758315/69‑1 (MQ=255)
aGTTCATTGAAGCGCCGGGTATTCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTCATCggg < 1:435687/69‑1 (MQ=255)
gTTCATTGAAGCGCCGGGTATTCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCggg < 1:1399780/68‑1 (MQ=255)
tCATTGAAGCGCCGGGTATTCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGGTCGGGTa > 1:2757653/1‑68 (MQ=255)
tCATTGAAGCGCCGGGTATTCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTa > 1:843140/1‑68 (MQ=255)
cATTGAAGCGCCGGGTATTCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTAt > 1:805465/1‑68 (MQ=255)
tATTCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCaaa > 1:1077199/1‑67 (MQ=255)
ttCGTGGAATTGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCa < 1:2741893/54‑1 (MQ=255)
ttCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCa < 1:2783398/54‑1 (MQ=255)
ttCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCa < 1:264874/54‑1 (MQ=255)
ttCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCa < 1:2487611/54‑1 (MQ=255)
cGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAgg > 1:1508392/1‑69 (MQ=255)
cGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAgg > 1:715175/1‑69 (MQ=255)
aTGTTGGTGTTTACGTTGCCGGGTTTTGATCGAGTATTCaaa > 1:3115139/1‑42 (MQ=37)
aTGTTGGTGTTTACGTTGCCGGGTTTTGATCGAGTATTCaaa > 1:2608842/1‑42 (MQ=37)
aTGTTGGTGTTTACGTTGCCGGGTTTTGATCGAGTATTCaaa > 1:2573050/1‑42 (MQ=37)
aTGTTGGTGTTTACGTTGCCGGGTTTTGATCGAGTATTCaaa > 1:2184792/1‑42 (MQ=37)
aTGTTGGTGTTTACGTTGCCGGGTTTTGATCGAGTATTCaaa > 1:1374660/1‑42 (MQ=37)
aTGTTGGTGTTTACGTTGCCGGGTTTTGATCGAGTATTCaaa > 1:623513/1‑42 (MQ=37)
aTGTTGGTGTTTACGTTGCC‑‑GTTTTGATCGAGTATTCaaa > 1:3428388/1‑40 (MQ=16)
ttGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACa > 1:2148069/1‑52 (MQ=255)
ttGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa > 1:583641/1‑67 (MQ=255)
ttGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa > 1:1144603/1‑67 (MQ=255)
tctgtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAaga < 1:2302573/67‑1 (MQ=255)
ggTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGtc > 1:611450/1‑40 (MQ=255)
ggTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa > 1:3074498/1‑65 (MQ=255)
ggTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAaga < 1:3165856/69‑1 (MQ=255)
ggTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAaga < 1:301741/69‑1 (MQ=255)
ggTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAaga < 1:2486489/69‑1 (MQ=255)
ggTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAaga < 1:47656/69‑1 (MQ=255)
ggTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAaga < 1:3139916/69‑1 (MQ=255)
ggTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAaga < 1:1569928/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:2980429/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:3301801/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:3072006/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:1356062/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:2782321/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:2621477/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:2742467/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:848359/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:818209/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:547320/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:184914/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:548447/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:2318951/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:640481/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:567538/69‑1 (MQ=255)
gtTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:2106254/69‑1 (MQ=255)
tttACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGAt < 1:2798618/68‑1 (MQ=255)
tttACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATg < 1:319115/69‑1 (MQ=255)
tttACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATg < 1:2115352/69‑1 (MQ=255)
tttACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATg < 1:1279428/69‑1 (MQ=255)
tACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAaga < 1:2519885/63‑1 (MQ=255)
tACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTc > 1:1919972/1‑69 (MQ=255)
tACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTc > 1:65936/1‑69 (MQ=255)
tACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTc > 1:773514/1‑69 (MQ=255)
tACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTc > 1:2074650/1‑69 (MQ=255)
tACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTc > 1:1666487/1‑69 (MQ=255)
tACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTc > 1:333965/1‑69 (MQ=255)
tACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTc > 1:2814027/1‑69 (MQ=255)
cTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAaga < 1:203717/59‑1 (MQ=255)
gttttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTCTGCCGCTCACg > 1:1587342/3‑69 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:1047356/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:1323385/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:1176225/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:307293/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:9698/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:195750/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:247943/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:2602565/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:1178309/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:3181644/45‑1 (MQ=255)
ttGATCGAGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGa < 1:3037076/45‑1 (MQ=255)
ttGATCGAGGATTCAAAGTCATCAAAGACAGGTGCGCGCCGCAGa < 1:1952370/45‑1 (MQ=255)
|
AGTTCATTGAAGCGCCGGGTATTCGTGGAATGGTGATGTTGGTGTTTACGCTGCCGGGCTTTGATCGGGTATTCAAAGTCATCAAAGACAGGTTCGCGCCGCAGAAAGAGATGTCTGCCGCTCACG > minE/2774725‑2774850
|
| 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
