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 |
1,622,669 |
T→C |
48.3% |
A659A (GCA→GCG) |
maeB ← |
fused malic enzyme predicted oxidoreductase and predicted phosphotransacetylase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,622,669 | 0 | T | C | 48.3%
| ‑3.7
/ 50.6
| 58 | A659A (GCA→GCG) | maeB | fused malic enzyme predicted oxidoreductase and predicted phosphotransacetylase |
| Reads supporting (aligned to +/- strand): ref base T (8/22); new base C (14/14); total (22/36) |
| Fisher's exact test for biased strand distribution p-value = 1.04e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCGTTGCGAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTCGACGACGGGCAG > minE/1622604‑1622723
|
tCGTTGCGAATCGCTTCCACCAGCGCTGCATCGCCTTGCATTTCACCATCAATCATCAGTTCTGGTGct < 1:765807/69‑2 (MQ=255)
tCGTTGCGAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCa < 1:3315921/69‑1 (MQ=255)
tCGTTGCGAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCa < 1:2637811/69‑1 (MQ=255)
tCGTTGCGAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCa < 1:2289683/69‑1 (MQ=255)
tCGTTGCGAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCa < 1:2095085/69‑1 (MQ=255)
tCGTTGCGAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCa < 1:1568488/69‑1 (MQ=255)
cGTTGCGAAGCGCTTCCACCAGCGCTGCATCTCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCa < 1:1689988/68‑1 (MQ=255)
gattCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:1990363/65‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:1046667/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:876570/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:661809/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:642557/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:377405/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:346821/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:2559381/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:1773804/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:1161134/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:1303701/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:1578146/68‑1 (MQ=255)
gAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:1408644/68‑1 (MQ=255)
aaTCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCCTCAATCATCAGTTCTGGTGCACGTTCCCt < 1:3110789/69‑1 (MQ=255)
aaTCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCt < 1:1747056/69‑1 (MQ=255)
aaTCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCt < 1:476329/69‑1 (MQ=255)
aaTCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCt < 1:472298/69‑1 (MQ=255)
aaTCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCt < 1:1368314/69‑1 (MQ=255)
aaTCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCt < 1:3312059/69‑1 (MQ=255)
aaTCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCt < 1:2934315/69‑1 (MQ=255)
aaTCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCt < 1:2699653/69‑1 (MQ=255)
cgcTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGCGCACGTTcc < 1:247934/52‑1 (MQ=255)
cGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCa < 1:1721568/69‑1 (MQ=255)
cGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCa < 1:535483/69‑1 (MQ=255)
cGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCa < 1:508861/69‑1 (MQ=255)
cGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCa < 1:2684222/69‑1 (MQ=255)
aTTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCt < 1:2798192/38‑1 (MQ=255)
tCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTcgac > 1:1417259/1‑69 (MQ=255)
tCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTcgac > 1:888139/1‑69 (MQ=255)
tCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTcgac > 1:1044296/1‑69 (MQ=255)
tCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTcgac > 1:654242/1‑69 (MQ=255)
tCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTcgac > 1:1378898/1‑69 (MQ=255)
tCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTcgac > 1:3125163/1‑69 (MQ=255)
tCACAATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGc > 1:908545/1‑57 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGa > 1:2818083/1‑50 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:1525657/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:2890939/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:1681721/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:1599035/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:1463517/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:1439118/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:234532/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:2363110/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:3237907/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:3207708/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTc > 1:3138881/1‑62 (MQ=255)
cATCAATCATCAGTTCTGGCGCACGTTCCCTGACCAGTTACAGCGCCTGACGCATTTTGCTc > 1:1777109/1‑62 (MQ=255)
cATCAAACATCAGTTCTGGCGCACGTTCCCTGAGCAGTTCCAGCGCCTGACGCATTTTGCt > 1:196340/1‑61 (MQ=255)
tcatcaGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTCGACGACGGGCAg < 1:2567502/68‑1 (MQ=255)
catcaGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTcgac > 1:1156044/1‑58 (MQ=255)
catcaGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTCGACGACGGGCAg < 1:2343724/67‑1 (MQ=255)
|
TCGTTGCGAATCGCTTCCACCAGCGCTGCATCGCCGTGCATTTCACCATCAATCATCAGTTCTGGTGCACGTTCCCTGACCAGTTCCAGCGCCTGACGCATTTTGCTCGACGACGGGCAG > minE/1622604‑1622723
|
| 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
