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 |
1,863,770 |
A→G |
27.2% |
Q31Q (CAA→CAG) |
ygcP → |
predicted anti‑terminator regulatory protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,863,770 | 0 | A | G | 27.2%
| 55.8
/ 20.7
| 55 | Q31Q (CAA→CAG) | ygcP | predicted anti‑terminator regulatory protein |
| Reads supporting (aligned to +/- strand): ref base A (2/38); new base G (8/7); total (10/45) |
| Fisher's exact test for biased strand distribution p-value = 1.79e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCTGCCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAG > minE/1863717‑1863830
|
gctgcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGtgttg < 1:2559151/69‑1 (MQ=255)
gctgcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGtgttg < 1:785049/69‑1 (MQ=255)
gctgcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGtgttg < 1:3055751/69‑1 (MQ=255)
gctgcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGtgttg < 1:2496776/69‑1 (MQ=255)
gctgcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGtgttg > 1:673765/1‑69 (MQ=255)
gctgcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGtgttg < 1:3256080/69‑1 (MQ=255)
gctgcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGtgttg < 1:1598110/69‑1 (MQ=255)
gcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGACTCTGAATGCCAGTTTATTTCCGTGTTGTAc < 1:1113089/69‑1 (MQ=255)
gcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGACTCTGAATGCCAGTTTATTTCCGTGTTGTAc < 1:2851111/69‑1 (MQ=255)
gcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGACTCTGAATGCCAGTTTATTTCCGTGTTGTAc < 1:317133/69‑1 (MQ=255)
gcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGACTCTGAATGCCAGTTTATTTCCGTGTTGTAc < 1:3173831/69‑1 (MQ=255)
gcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGACTCTGAATGCCAGTTTATTTCCGTGTTGTAc < 1:2112353/69‑1 (MQ=255)
gcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGACTCTGAATGCCAGTTTATTTCCGTGTTGTAc < 1:3266747/69‑1 (MQ=255)
gcCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGACTCTGAATGCCAGTTTATTTCCGTGTTGTAc < 1:1687723/69‑1 (MQ=255)
cTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGt < 1:2848306/69‑1 (MQ=255)
cTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGt < 1:28469/69‑1 (MQ=255)
cTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGt < 1:1566723/69‑1 (MQ=255)
cTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGt < 1:1093495/69‑1 (MQ=255)
cTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGt < 1:872135/69‑1 (MQ=255)
cTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGt < 1:1231591/69‑1 (MQ=255)
cTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGt < 1:2269696/69‑1 (MQ=255)
cTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGt < 1:308717/69‑1 (MQ=255)
gCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGtgttg < 1:1795959/43‑1 (MQ=255)
tGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATc > 1:3117238/1‑68 (MQ=255)
cGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:402625/69‑1 (MQ=255)
cGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:701878/69‑1 (MQ=255)
cGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:1487874/69‑1 (MQ=255)
cGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:1514307/69‑1 (MQ=255)
cGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:371351/69‑1 (MQ=255)
cGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:38516/69‑1 (MQ=255)
cGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:2902794/69‑1 (MQ=255)
cGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:3019867/69‑1 (MQ=255)
gATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:2585612/68‑1 (MQ=255)
gATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTaaaaa < 1:129679/68‑1 (MQ=255)
gATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAg < 1:222461/69‑1 (MQ=255)
gATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAg < 1:1983357/69‑1 (MQ=255)
gATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAg < 1:1716844/69‑1 (MQ=255)
aTTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAg < 1:2160353/68‑1 (MQ=255)
tCTGAATGCCAGTTTATTTCCGTGTTGTACGGCAATATCTGCACCATTAGTAATATCGTTAAAAAg > 1:3324657/1‑66 (MQ=255)
tCTGAATGCCAGTTTATTTCCGTGTTGTACGGCAATATCTGCACCATTAGTAATATCGTTAAAAAGa > 1:2500392/1‑67 (MQ=255)
tCTGAATGCCAGTTTATTTCCGTGTTGTACGGCAATATCTGCACCATTAGTAATATCGTTAAAAAGa > 1:2428772/1‑67 (MQ=255)
tCTGAATGCCAGTTTATTTCCGTGTTGTACGGCAATATCTGCACCATTAGTAATATCGTTAAAAAGa > 1:2950155/1‑67 (MQ=255)
tCTGAATGCCAGTTTATTTCCGTGTTGTACGGCAATATCTGCACCATTAGTAATATCGTTAAAAAGa > 1:3335347/1‑67 (MQ=255)
tCTGAATGCCAGTTTATTTCCGTGTTGTACGGCAATATCTGCACCATTAGTAATATCGTTAAAAAGa > 1:1175066/1‑67 (MQ=255)
tCTGAATGCCAGTTTATTTCCGTGTTGTACGGCAATATCTGCACCATTAGTAATATCGTTAAAAAGa > 1:395232/1‑67 (MQ=255)
tCTGAATGCCAGTTTATTTCCGTGTTGTACGGCAATATCTGCACCATTAGTAATATCGTTAAAAAGa > 1:675337/1‑67 (MQ=255)
tGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAg < 1:906213/66‑1 (MQ=255)
tGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAg < 1:1116039/66‑1 (MQ=255)
tGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAg < 1:1175146/66‑1 (MQ=255)
tGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAg < 1:425790/66‑1 (MQ=255)
tGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAg < 1:1320626/66‑1 (MQ=255)
tGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAg < 1:1886467/66‑1 (MQ=255)
tGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAg < 1:2272457/66‑1 (MQ=255)
tGCCAATTTATTTCCGTGCTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAg < 1:346104/66‑1 (MQ=255)
gCCAATTTATTTCCGTGTTGTACGTCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAg < 1:1845722/65‑1 (MQ=255)
|
GCTGCCGTTAAAGATAATGCCAGCCTGCAACTGGCAATCGATTCTGAATGCCAATTTATTTCCGTGTTGTACGGCAATATCTGCACCATCAGTAATATCGTTAAAAAGATTAAG > minE/1863717‑1863830
|
| 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
