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 |
1,956,370 |
C→T |
39.0% |
intergenic (+313/+76) |
ygfA → / ← serA |
predicted ligase/D‑3‑phosphoglycerate dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,956,370 | 0 | C | T | 39.0%
| 31.8
/ 40.1
| 64 | intergenic (+313/+76) | ygfA/serA | predicted ligase/D‑3‑phosphoglycerate dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base C (14/25); new base T (12/13); total (26/38) |
| Fisher's exact test for biased strand distribution p-value = 4.36e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.23e-01 |
AACACAACGCATTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGATTTTCAGAG > minE/1956305‑1956437
|
aaCACAACGCATTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAAcgc > 1:3010305/1‑68 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:2975225/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:1139366/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:898893/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:2796267/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:334285/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:882493/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:1646551/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:2131134/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:2729953/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:2117385/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:1867170/69‑1 (MQ=255)
aTTGATCTGACTTTGATTTATTTACTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:1369656/69‑1 (MQ=255)
ttGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAATGCGGCAACGgtgt < 1:2393865/68‑1 (MQ=255)
gATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAACGCGGCAACGGtgtg > 1:1078006/1‑67 (MQ=255)
gATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTgg > 1:2194217/1‑68 (MQ=255)
gATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTgg > 1:3094117/1‑68 (MQ=255)
gATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTgg > 1:3181185/1‑68 (MQ=255)
gATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTgg > 1:2280904/1‑68 (MQ=255)
gATCTGACTTTGATTTATTTTCTGGAGCAGAATCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTgg > 1:542384/1‑68 (MQ=255)
ttatttTCTGGAGCAGACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATaaaaa < 1:2632099/68‑1 (MQ=255)
ttatttTCTGGAGCAGACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATaaaaa < 1:1365390/68‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:2642915/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:2938822/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:3063563/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:279615/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:3252674/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:2244310/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:2024406/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:1714953/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:1649372/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:1342986/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:1322169/69‑1 (MQ=255)
gACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg < 1:1104974/69‑1 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATaaaaaaa > 1:1549790/1‑46 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGccc > 1:3286784/1‑68 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGccc > 1:3330322/1‑68 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGccc > 1:783650/1‑68 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGccc > 1:87054/1‑68 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGccc > 1:2684132/1‑68 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGccc > 1:2775569/1‑68 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGccc > 1:1674936/1‑68 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGccc > 1:254868/1‑68 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGccc > 1:2264034/1‑68 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGcc > 1:1597776/1‑67 (MQ=255)
aGTAGAATGCGCAATGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGcc > 1:2234603/1‑67 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:2395614/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:694304/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:644736/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:874923/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:115640/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:2412692/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:2426341/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:288261/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:2834635/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGt < 1:2939294/48‑1 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGAtt > 1:90395/1‑68 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGAtt > 1:1775089/1‑68 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGAtt > 1:2120459/1‑68 (MQ=255)
tGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGAtt > 1:456972/1‑68 (MQ=255)
cgcAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTg > 1:2736408/1‑51 (MQ=255)
cgcAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGAtt > 1:8931/1‑66 (MQ=255)
cgcAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGAtt > 1:3294252/1‑66 (MQ=255)
cgcAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGAt > 1:786846/1‑65 (MQ=255)
aCGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGATTTTCagag < 1:371018/69‑1 (MQ=255)
|
AACACAACGCATTGATCTGACTTTGATTTATTTTCTGGAGCAGACTCGCAAAGTAGAATGCGCAACGCGGCAACGGTGTGGAGAAGGGATAAAAAAACGGGCAAGTCAGTGACCTGCCCGTTGATTTTCAGAG > minE/1956305‑1956437
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
