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 |
1,976,012 |
C→T |
34.8% |
N245N (AAC→AAT) |
galP → |
D‑galactose transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,976,012 | 0 | C | T | 34.8%
| 28.1
/ 21.2
| 43 | N245N (AAC→AAT) | galP | D‑galactose transporter |
| Reads supporting (aligned to +/- strand): ref base C (18/10); new base T (5/10); total (23/20) |
| Fisher's exact test for biased strand distribution p-value = 6.42e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.05e-01 |
GAAATCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATGCAGCAATTCACCGGGATGAA > minE/1975956‑1976080
|
gAAATCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:1122679/61‑1 (MQ=255)
gAAATCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:1184355/61‑1 (MQ=255)
gAAATCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:1282473/61‑1 (MQ=255)
gAAATCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:2776848/61‑1 (MQ=255)
gAAATCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:558507/61‑1 (MQ=255)
gAAATCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:1861575/61‑1 (MQ=255)
gAAATCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:161132/61‑1 (MQ=255)
gAAATCCGTGAAAGTTTGAAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:2930103/61‑1 (MQ=255)
aaaTCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:969341/60‑1 (MQ=255)
gAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAATAGCa < 1:976792/52‑1 (MQ=255)
ttAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTAc > 1:2286101/1‑69 (MQ=255)
ttAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTAc > 1:1709209/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:3029784/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:3283299/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:2923843/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:498694/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:956258/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:2520609/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:990303/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:1578123/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:139654/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACt > 1:1983040/1‑69 (MQ=255)
tAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTCGGCGTACt > 1:1832247/1‑69 (MQ=255)
gCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTaa < 1:490759/69‑1 (MQ=255)
gCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTaa < 1:1860383/69‑1 (MQ=255)
cgcTGTTTAAAGAGAACAGCAACTTCCGCCGCTCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc < 1:2929930/69‑1 (MQ=255)
cgcTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc < 1:2408807/69‑1 (MQ=255)
cgcTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc < 1:330679/69‑1 (MQ=255)
cgcTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc < 1:664490/69‑1 (MQ=255)
tttAAAGAGAATAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGt > 1:2563306/1‑44 (MQ=255)
tttAAAGAGAATAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGt > 1:753353/1‑44 (MQ=255)
tttAAAGAGAATAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGt > 1:1183389/1‑44 (MQ=255)
tttAAAGAGAATAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGt > 1:2221054/1‑44 (MQ=255)
tttAAAGAGAATAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGt > 1:3435213/1‑44 (MQ=255)
tAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc < 1:1339565/62‑1 (MQ=255)
tAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc < 1:893765/62‑1 (MQ=255)
tAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc < 1:1470252/62‑1 (MQ=255)
tAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc < 1:3390415/62‑1 (MQ=255)
tAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc > 1:483493/1‑62 (MQ=255)
tAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc > 1:3398329/1‑62 (MQ=255)
tAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc > 1:3143181/1‑62 (MQ=255)
tAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc > 1:2035238/1‑62 (MQ=255)
tAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATgcagc > 1:2408496/1‑62 (MQ=255)
cAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATGCAGCAATTCACCGGGATg > 1:1197233/1‑67 (MQ=255)
cAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATGCAGCAATTCACCGGGATGaa > 1:154673/1‑69 (MQ=255)
cAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATGCAGCAATTCACCGGGATGaa > 1:463500/1‑69 (MQ=255)
cAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATGCAGCAATTCACCGGGATGaa > 1:3100308/1‑69 (MQ=255)
cAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATGCAGCAATTCACCGGGATGaa > 1:1596191/1‑69 (MQ=255)
|
GAAATCCGTGAAAGTTTGCAGGTTAAACAGAGTGGCTGGGCGCTGTTTAAAGAGAACAGCAACTTCCGCCGCGCGGTGTTCCTTGGCGTACTGTTGCAGGTAATGCAGCAATTCACCGGGATGAA > minE/1975956‑1976080
|
| 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
