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 |
1,341,698 |
A→G |
36.9% |
R102R (CGT→CGC) |
wcaA ← |
predicted glycosyl transferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,341,698 | 0 | A | G | 36.9%
| 39.3
/ 44.6
| 73 | R102R (CGT→CGC) | wcaA | predicted glycosyl transferase |
| Reads supporting (aligned to +/- strand): ref base A (26/20); new base G (19/8); total (45/28) |
| Fisher's exact test for biased strand distribution p-value = 3.20e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.72e-01 |
CGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGATATATTCCCCTTGC > minE/1341637‑1341752
|
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGtt > 1:1371967/1‑67 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:3242030/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2679188/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2895094/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2897721/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2035548/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2034128/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2988958/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:314112/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:3411165/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:1699186/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:347257/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:935436/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:989384/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:960683/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:1447229/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTg > 1:347211/1‑68 (MQ=255)
cGTTAGCGTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTAgg > 1:2452965/1‑69 (MQ=255)
cGTTAGCGTACAAAAAGCCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTgg > 1:2587561/1‑69 (MQ=255)
gTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGGGTCCa < 1:2523805/69‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:12258/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:145253/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:2646389/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:2636382/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:2372719/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:3197606/68‑1 (MQ=255)
gTACAAAAAGGCGTGAGTGACCAGTTGCTGTTTACGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:36516/68‑1 (MQ=255)
cAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtc > 1:2969983/1‑69 (MQ=255)
ggCGTGAGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGGCGGTTGGGTGTcc < 1:2886680/59‑1 (MQ=255)
tgtgtgACCAGTTGCTGTTTATTGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgt > 1:630451/1‑61 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTTTCCATtcgtc > 1:452599/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:972908/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:3087243/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:2712766/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:3357022/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:3386243/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:1011528/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:2300057/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgtc > 1:1815452/1‑62 (MQ=255)
tgtgtgACCAGTTGCTGTTTATGGGCGAGGAAGACGATCAGACGGTTGGGAGTCCATtcgtc > 1:165489/1‑62 (MQ=255)
aCCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgt > 1:2045563/1‑55 (MQ=255)
aCCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgt > 1:2003202/1‑55 (MQ=255)
aCCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgt > 1:936255/1‑55 (MQ=255)
aCCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgt > 1:646910/1‑55 (MQ=255)
aCCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgt > 1:529970/1‑55 (MQ=255)
aCCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgt > 1:1607085/1‑55 (MQ=255)
aCCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATtcgt > 1:1901758/1‑55 (MQ=255)
aCCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCAAtcgt > 1:2650620/1‑55 (MQ=255)
tGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTg < 1:1977865/69‑1 (MQ=255)
tGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTg < 1:453922/69‑1 (MQ=255)
tGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTg < 1:49371/69‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGgtgta < 1:1256483/41‑2 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTc < 1:1062394/41‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTc < 1:907011/41‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTc < 1:3020485/41‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTc < 1:1971455/41‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGa < 1:1848446/69‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGa < 1:1046048/69‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGa < 1:872098/69‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGa < 1:430835/69‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGa < 1:1831644/69‑1 (MQ=255)
gCTGTTTATGGGCGAGGAAGACGCTCAGACGGGTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGa < 1:514618/69‑1 (MQ=255)
tATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGatatat < 1:1364812/68‑1 (MQ=255)
tATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGatatat < 1:658621/68‑1 (MQ=255)
tATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGatatat < 1:1719137/68‑1 (MQ=255)
tATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGatatat < 1:333489/68‑1 (MQ=255)
tATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGATATAtt > 1:1349685/1‑69 (MQ=255)
tATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGATATAtt > 1:3204552/1‑69 (MQ=255)
tATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGATATAtt > 1:102471/1‑69 (MQ=255)
tATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATCCGTCATCGTCATCAATCCCGGTGATATAtt > 1:1895783/1‑69 (MQ=255)
ggCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGATATATTccc < 1:1932441/68‑1 (MQ=255)
gAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGATATATTCCCCTTgc > 1:661292/1‑67 (MQ=255)
gAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGATATATTCCCCTTgc > 1:977093/1‑67 (MQ=255)
|
CGTTAGCGTACAAAAAGGCGTGTGTGACCAGTTGCTGTTTATGGGCGAGGAAGACGCTCAGACGGTTGGGTGTCCATTCGTCATCGTCATCAATCCCGGTGATATATTCCCCTTGC > minE/1341637‑1341752
|
| 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
