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 |
2,023,139 |
A→G |
35.5% |
G256G (GGT→GGC) |
ygiQ ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,023,139 | 0 | A | G | 35.5%
| 37.9
/ 32.7
| 59 | G256G (GGT→GGC) | ygiQ | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (17/21); new base G (13/8); total (30/29) |
| Fisher's exact test for biased strand distribution p-value = 2.79e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.83e-01 |
CGGTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATCCACGCCG > minE/2023072‑2023202
|
cGGTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCAc < 1:1925539/69‑1 (MQ=255)
cGGTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCAc < 1:1513785/69‑1 (MQ=255)
cGGTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCAc < 1:437382/69‑1 (MQ=255)
cGGTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCAc < 1:551504/69‑1 (MQ=255)
gTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCTGTTTGTTATACGCGCACGGAAAATCTTCAcc > 1:420874/1‑68 (MQ=255)
gTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCa > 1:1383836/1‑69 (MQ=255)
gTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCa > 1:2318451/1‑69 (MQ=255)
gTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCa > 1:1779762/1‑69 (MQ=255)
gTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCa > 1:1594830/1‑69 (MQ=255)
tttCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCggg > 1:2265330/1‑58 (MQ=255)
tttCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCggg > 1:189657/1‑58 (MQ=255)
tttCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCggg > 1:3307570/1‑58 (MQ=255)
tttCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCggg > 1:211189/1‑58 (MQ=255)
tttCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCggg < 1:707192/58‑1 (MQ=255)
tttCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCggg > 1:1555454/1‑58 (MQ=255)
tttCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCggg < 1:1409387/58‑1 (MQ=255)
tttCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCggg > 1:1309251/1‑58 (MQ=255)
aCCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCggg < 1:1370021/48‑1 (MQ=255)
ccGGTTTGTTATCCGCGCCCGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:303452/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATa > 1:2967924/1‑37 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:3137451/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:350383/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:3123423/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:662499/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:3120473/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:744122/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:3099763/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:95525/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:2696314/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:2389713/1‑61 (MQ=255)
ccGGTTTGTTATCCGCGCACGGCAAATCTTCGCCATACGGATGCGGGATTGGGTCGAtttt > 1:1655375/1‑61 (MQ=255)
tGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCaa < 1:9185/69‑1 (MQ=255)
tGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCaa < 1:3007426/69‑1 (MQ=255)
tGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCaa < 1:2309829/69‑1 (MQ=255)
tGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCaa < 1:483896/69‑1 (MQ=255)
tGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCaa < 1:185998/69‑1 (MQ=255)
gTTATCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCaa < 1:238668/68‑1 (MQ=255)
aTCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACg < 1:2764204/69‑1 (MQ=255)
aTCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACg < 1:735356/69‑1 (MQ=255)
aTCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACg < 1:2517064/69‑1 (MQ=255)
cGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATc < 1:1790401/69‑1 (MQ=255)
cGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATc < 1:1145868/69‑1 (MQ=255)
ggCATATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATc < 1:1441901/68‑1 (MQ=255)
cAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCaa < 1:1074611/53‑1 (MQ=255)
aaaTCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACg < 1:1712904/56‑1 (MQ=255)
aaTCTTCGCCATACGGATGCGGGATTGGGTCGATTTTCCCTGGGGTATCAAGACGGGTGGAATCCAcac < 1:3282424/69‑3 (MQ=255)
aaTCTTCGCCATACGGATGCGGGATTGGGTCGATTTTCCCTGGGGTATCAAGACGGGTGGAATCCAcac < 1:1714302/69‑3 (MQ=255)
aaTCTTCGCCATACGGATGCGGGATTGGGTCGATTTTCCCTGGGGTATCAAGACGGGTGGAATCCAcac < 1:1984730/69‑3 (MQ=255)
aaTCTTCGCCATACGGATGCGGGATTGGGTCGATTTTCCCTGGGGTATCAAGACGGGTGGAATCCAcac < 1:488292/69‑3 (MQ=255)
aaTCTTCGCCATACGGATGCGGGATTGGGTCGATTTTCCCTGGGGTATCAAGACGGGTGGAATCCAcac < 1:2847823/69‑3 (MQ=255)
aaTCTTCGCCATACGGATGCGGGATTGGGTCGATTTTCCCTGGGGTATCAAGACGGGTGGAATCCAcac < 1:1591362/69‑3 (MQ=255)
aTCTTCGCCATACGGATGCGGGATTGGGTCGATTTTCCCTGGGGTATCAAGACGGGTGGAATCCAcac < 1:2729898/68‑3 (MQ=255)
aTCTTCGCCATACGGATGCGGGATTGGGTCGATTTTCCCTGGGGTATCAAGACGGGTGGAATCCAcac < 1:815131/68‑3 (MQ=255)
tCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGa > 1:3368074/1‑51 (MQ=255)
tCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATCCAcgccg > 1:742739/1‑69 (MQ=255)
tCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATCCAcgccg > 1:2849726/1‑69 (MQ=255)
tCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATCCAcgccg > 1:156964/1‑69 (MQ=255)
tCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATCCAcgccg > 1:580422/1‑69 (MQ=255)
tCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATCCAcgccg > 1:2205513/1‑69 (MQ=255)
|
CGGTTACGGCTTTGGCTTCCTGCTTTTTCGGTGCCACCGGTTTGTTATCCGCGCACGGCAAATCTTCACCATACGGATGCGGGATTGGGTCGATTTTTCCAGGGGTATCAAGACGGGTGGAATCCACGCCG > minE/2023072‑2023202
|
| 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
