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 |
1,029,310 |
T→G |
62.5% |
A221A (GCT→GCG) |
malY → |
bifunctional beta‑cystathionase, PLP‑dependent and regulator of maltose regulon |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,029,310 | 0 | T | G | 62.5%
| 68.7
/ 56.6
| 77 | A221A (GCT→GCG) | malY | bifunctional beta‑cystathionase, PLP‑dependent and regulator of maltose regulon |
| Reads supporting (aligned to +/- strand): ref base T (19/10); new base G (21/27); total (40/37) |
| Fisher's exact test for biased strand distribution p-value = 9.88e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCCGATGAAATCCATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCGGTG > minE/1029245‑1029374
|
tCCGATGAAATCCATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCt > 1:2880159/1‑66 (MQ=255)
tCCGATGAAATCCATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTcg > 1:1153538/1‑68 (MQ=255)
tCCGATGAAATCCATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTcg > 1:377521/1‑68 (MQ=255)
cGATGAAATCCATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTcgcg < 1:3350597/68‑1 (MQ=255)
cATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGga < 1:788278/60‑1 (MQ=255)
tatggatatggTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGga < 1:438896/58‑1 (MQ=255)
gatatggTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTa > 1:1823211/1‑69 (MQ=255)
gCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCaa < 1:2308592/69‑1 (MQ=255)
gCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCaa < 1:870298/69‑1 (MQ=255)
gCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCaa < 1:332972/69‑1 (MQ=255)
gCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGGCGGGCTCGAAAAGTTTCaa < 1:595008/69‑1 (MQ=255)
ttCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTc > 1:1796706/1‑69 (MQ=255)
tGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGcc < 1:322748/69‑1 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:2230893/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:226395/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:3404353/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:2133167/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:2126928/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:2370614/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:2125556/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:2408726/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:3405953/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:463618/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:495727/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:562885/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:745870/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:843544/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:969830/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:196247/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:1082083/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:1413137/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:160232/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:1860617/1‑54 (MQ=255)
tGGAGTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTCGGGATCAAAAAGt > 1:2051095/1‑54 (MQ=255)
gTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTg < 1:558033/68‑1 (MQ=255)
gTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTg < 1:1598490/68‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTACCGTc < 1:3207790/37‑1 (MQ=38)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:3302178/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1336242/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:2295784/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:50113/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1485225/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1491348/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1269107/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1544940/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:35247/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1589752/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:181419/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:2179984/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1742449/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:3324522/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:2697089/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1810274/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1016440/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1125127/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:2464614/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:2529130/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:798101/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1754112/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:2785373/37‑1 (MQ=255)
gTAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:755697/37‑1 (MQ=255)
gTAATGGGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:2934902/37‑1 (MQ=38)
tAATGTGGCGCGCGGAGACTGGGCGTTGCTAACGTc < 1:1919162/36‑1 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:1194399/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:1183579/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:70096/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:3330679/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:89905/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:1936235/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:541465/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:1542236/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:2923790/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:1800516/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:2627285/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:231430/1‑69 (MQ=255)
aTGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCg > 1:2270326/1‑69 (MQ=255)
tgGCTCGCGGAGACTGGGCGTTGCTATCGTCGGGCTCGAAAAGTTTCTATATTCCCGCCCTGACCGGTg > 1:2460350/1‑69 (MQ=255)
tgGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCGGTg > 1:2675221/1‑69 (MQ=255)
|
TCCGATGAAATCCATATGGATATGGTTTGGGGCGAGCAGCCGCATATTCCCTGGAGTAATGTGGCTCGCGGAGACTGGGCGTTGCTAACGTCGGGCTCGAAAAGTTTCAATATTCCCGCCCTGACCGGTG > minE/1029245‑1029374
|
| 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
