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 |
|
A1 F17 I0 R2
|
276 |
45.3 |
3729697 |
93.0% |
3468618 |
60.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,350,543 |
G→A |
80.0% |
V337I (GTA→ATA) |
nrdA → |
ribonucleoside diphosphate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,350,543 | 0 | G | A | 80.0%
| 138.8
/ 31.7
| 65 | V337I (GTA→ATA) | nrdA | ribonucleoside diphosphate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (5/8); new base A (23/29); total (28/37) |
| Fisher's exact test for biased strand distribution p-value = 7.64e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.92e-01 |
GGTGTTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGTTCAGC > W3110S.gb/2350485‑2350605
|
ggTGTTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATca > 1:1846289/1‑68 (MQ=255)
ggTGTTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATca > 1:3460862/1‑68 (MQ=255)
gtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATcaacaa > 1:1490950/1‑69 (MQ=255)
gtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATcaaca < 1:2047345/68‑1 (MQ=255)
gAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACt < 1:1948629/69‑1 (MQ=255)
gAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACt > 1:2197172/1‑69 (MQ=255)
gAAAAACAACCGTGGTGTGGAAGGCAACAGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACt > 1:2614821/1‑69 (MQ=255)
aaaaaCAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACt < 1:280856/68‑1 (MQ=255)
aaaaCAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATcaacaa < 1:2412709/64‑1 (MQ=255)
aaaaCAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATcaacaa < 1:2575583/64‑1 (MQ=255)
aaaaCAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTg < 1:53522/68‑1 (MQ=255)
aaaaCAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTg < 1:128753/68‑1 (MQ=255)
aaaaCAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTA‑‑‑GGTACAAATCAACAAACTGATg < 1:1757499/68‑1 (MQ=255)
aacaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATg < 1:1336480/69‑1 (MQ=255)
aacaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATg > 1:1405542/1‑69 (MQ=255)
aacaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATg > 1:3702010/1‑69 (MQ=255)
aacaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATg < 1:2469406/69‑1 (MQ=255)
aacaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg < 1:2195233/69‑1 (MQ=255)
aacaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg < 1:1940831/69‑1 (MQ=255)
acaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg > 1:1649181/1‑68 (MQ=255)
acaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg > 1:3001049/1‑68 (MQ=255)
acaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg > 1:46658/1‑68 (MQ=255)
cGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATGTATAc < 1:1186768/68‑1 (MQ=255)
gtgtGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACt < 1:2783141/55‑1 (MQ=255)
tgGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTc < 1:2813158/66‑1 (MQ=255)
tgGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTc < 1:2644022/66‑1 (MQ=255)
tgGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTc < 1:1584555/66‑1 (MQ=255)
gAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTctgct > 1:3304083/1‑68 (MQ=255)
gAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTctgct > 1:3502960/1‑68 (MQ=255)
gAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTctgct > 1:2865319/1‑68 (MQ=255)
aGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTg > 1:2115185/1‑49 (MQ=255)
aGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTg > 1:3521505/1‑49 (MQ=255)
aGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTg > 1:1659907/1‑49 (MQ=255)
aGGCAACCGCGTGCGTCATATGGACTAAGGGATACAAATCAACAAACTg > 1:1158942/1‑49 (MQ=255)
cAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg > 1:3237329/1‑49 (MQ=255)
cAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg < 1:1407149/49‑1 (MQ=255)
cAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg > 1:1681584/1‑49 (MQ=255)
cAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg < 1:2719341/49‑1 (MQ=255)
cAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg > 1:2601416/1‑49 (MQ=255)
cAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATg < 1:2294950/49‑1 (MQ=255)
aaCCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAgg > 1:3563393/1‑68 (MQ=255)
cgcgTGCGTCATATGGACTACGGGGTACAAATCAACAACCTGATg < 1:1963/45‑1 (MQ=255)
cgcgTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATg < 1:3014654/45‑1 (MQ=255)
cgcgTGCGTCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAgg > 1:7444/1‑65 (MQ=255)
cgtgcgtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGa < 1:3037031/69‑1 (MQ=255)
cgtgcgtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGa < 1:2001491/69‑1 (MQ=255)
gcgtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGatat < 1:2672417/69‑1 (MQ=255)
cgtCATATGGACTACGGGATACAAATCAACAAACt > 1:605948/1‑35 (MQ=255)
cgtCATATGGACTACGGGATACAAATCAACAAACt > 1:1302012/1‑35 (MQ=255)
cgtCATATGGACTACGGGATACAAATCAACAAACt > 1:3085332/1‑35 (MQ=255)
cgtCATATGGACTACGGGATACAAATCAACAAACt > 1:2791640/1‑35 (MQ=255)
gtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATc < 1:2968647/68‑1 (MQ=255)
tCATATGGACTACGGGATACAAATCAACAAACTGATg < 1:3139183/37‑1 (MQ=255)
atatGGACTACGGGATACAAATCAACAAACTGATg < 1:1589195/35‑1 (MQ=255)
atatGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCAccc < 1:1785667/69‑1 (MQ=255)
atGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTg > 1:3066306/1‑69 (MQ=255)
tGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGaaa < 1:643750/50‑1 (MQ=255)
tGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGaaa < 1:819722/50‑1 (MQ=255)
gACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGTTc > 1:218628/1‑69 (MQ=255)
gACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCAc < 1:1436659/62‑1 (MQ=255)
gACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGtt < 1:3124213/68‑1 (MQ=255)
cTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTaaa < 1:1418430/52‑1 (MQ=255)
cTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGaa < 1:3223773/52‑1 (MQ=255)
cTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGaa < 1:3465990/52‑1 (MQ=255)
tACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGTTCAGc < 1:655136/69‑1 (MQ=255)
gTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGatat > 1:3252325/1‑50 (MQ=255)
|
GGTGTTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGTTCAGC > W3110S.gb/2350485‑2350605
|
| 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
