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 |
2,524,331 |
G→A |
66.7% |
I156I (ATC→ATT) |
yicC ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,524,331 | 0 | G | A | 66.7%
| 52.1
/ 40.2
| 75 | I156I (ATC→ATT) | yicC | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (8/17); new base A (39/11); total (47/28) |
| Fisher's exact test for biased strand distribution p-value = 2.70e-04 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.08e-01 |
TCCGGCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGACAATAAAGTCGTCCAGCGTAC > minE/2524272‑2524392
|
tCCGGCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCt < 1:698972/69‑1 (MQ=255)
tCCGGCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCt < 1:117772/69‑1 (MQ=255)
tCCGGCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCt < 1:2857079/69‑1 (MQ=255)
tCCGGCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCt < 1:1752022/69‑1 (MQ=255)
tCCGGCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCt < 1:3224229/69‑1 (MQ=255)
tCCGGCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCt < 1:1534973/69‑1 (MQ=255)
tCCGGCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCt < 1:305035/69‑1 (MQ=255)
gCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTc < 1:545779/68‑1 (MQ=255)
gCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTc < 1:1705407/68‑1 (MQ=255)
gCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTc < 1:3300406/68‑1 (MQ=255)
gCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTc < 1:3296401/68‑1 (MQ=255)
gCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTc < 1:320898/68‑1 (MQ=255)
atatGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTc < 1:1508550/66‑1 (MQ=255)
tGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTc < 1:3071553/63‑1 (MQ=255)
tGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTc < 1:2195960/63‑1 (MQ=255)
tGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTc < 1:3429982/63‑1 (MQ=255)
tGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTCAGTGc > 1:2998241/1‑68 (MQ=255)
gACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTCAGTGCCTGACCTTc > 1:3026421/1‑69 (MQ=255)
gACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTCAGTGCCTGACCTTc > 1:3022316/1‑69 (MQ=255)
gACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTCAGTGCCTGACCTTc > 1:616880/1‑69 (MQ=255)
gACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTCAGTGCCTGACCTTc > 1:2620708/1‑69 (MQ=255)
gACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTCAGTGCCTGACCTTc > 1:1063074/1‑69 (MQ=255)
gcggTGACGCCTTCCAGGCGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:409199/1‑67 (MQ=37)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTc > 1:1731276/1‑39 (MQ=21)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCt > 1:974843/1‑46 (MQ=25)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCgagat > 1:1407185/1‑67 (MQ=37)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:1029399/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:1828322/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:747933/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:1099485/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:1182247/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:465625/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:457027/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:1196974/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:365710/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:1198515/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:3388674/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:1230509/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:30026/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:1671200/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:2729766/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:1824665/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:2494516/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:2594041/1‑67 (MQ=38)
gcggTGACGCCTTCCAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGat > 1:2080838/1‑67 (MQ=38)
gcggTGACGCCTTACAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTcgcgcg > 1:1753336/1‑64 (MQ=37)
ggTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGACAAt < 1:479814/69‑1 (MQ=255)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCTGTTTCGCGCGCGa < 1:3394974/54‑1 (MQ=25)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:3227068/54‑1 (MQ=37)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:2506483/54‑1 (MQ=37)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:566037/54‑1 (MQ=37)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:25668/54‑1 (MQ=37)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:581088/54‑1 (MQ=37)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:1373025/54‑1 (MQ=37)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:1480897/54‑1 (MQ=37)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:1536681/54‑1 (MQ=37)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:1998366/54‑1 (MQ=37)
ccAGACGCTGCTCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGa < 1:2645757/54‑1 (MQ=37)
gctgctCGATCAATGCTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGACAATAAAGTCGTCCAGCGTAc > 1:3048271/1‑69 (MQ=255)
gctgctCGATCAATGCTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGACAATAAAGTCGTCCAGCGTAc > 1:2293976/1‑69 (MQ=255)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:2769106/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:1182736/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:497846/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:1950063/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:764254/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:2551661/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:333490/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:1211649/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:3262541/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:1331110/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:1631072/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:1775540/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:2663257/1‑58 (MQ=25)
gctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGAGCGCGATGATAAAgtcat > 1:251763/1‑55 (MQ=21)
ctCAATCAACACTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGATGATAAAgtcatc > 1:1937293/1‑57 (MQ=25)
|
TCCGGCATATGGGAGCGGACTTTGACCACTTCGGCGGTGACGCCTTCCAGACGCTGCTCGATCAATGCTTTCAGTGCCTGACCTTCGGTTTCGCGCGCGACAATAAAGTCGTCCAGCGTAC > minE/2524272‑2524392
|
| 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
