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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,947,335 |
A→G |
53.7% |
L158P (CTG→CCG) |
dnaT ← |
DNA biosynthesis protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,947,335 | 0 | A | G | 53.7%
| 18.3
/ 92.4
| 67 | L158P (CTG→CCG) | dnaT | DNA biosynthesis protein |
| Reads supporting (aligned to +/- strand): ref base A (14/17); new base G (7/29); total (21/46) |
| Fisher's exact test for biased strand distribution p-value = 3.46e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.37e-01 |
ACCCTCTGAATCCTGGTGGAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGCACATGGTGA > minE/2947270‑2947403
|
aCCCTCTGAATCCTGGTGGAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTccg > 1:1653739/1‑71 (MQ=255)
cccTCTGAATCCTGGTGGAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTccgc < 1:39198/71‑1 (MQ=255)
ccTCTGAATCCTGGTGGAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTccgcc < 1:1980798/71‑1 (MQ=255)
ccTCTGAATCCTGGTGGAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTccgcc < 1:2714324/71‑1 (MQ=255)
ccTCTGAATCCTGGTGGAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTccgc < 1:1596367/70‑1 (MQ=255)
ctctGAATCCTGGTGGAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTccgccg > 1:3204615/1‑71 (MQ=255)
tctGAATCCTGGTGGAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTCCGCCGt > 1:2419061/1‑71 (MQ=255)
ggtggAATTTTGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTccgcc < 1:1654094/59‑1 (MQ=255)
tggAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGt < 1:1475704/59‑1 (MQ=255)
tggAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGt < 1:2222525/59‑1 (MQ=255)
tggAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGt < 1:1061829/59‑1 (MQ=255)
tggAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGt < 1:1021886/59‑1 (MQ=255)
gAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGtt > 1:1159475/1‑58 (MQ=255)
gAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGtt > 1:3344200/1‑58 (MQ=255)
gAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGtt > 1:9276/1‑58 (MQ=255)
gAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCg < 1:2593761/71‑1 (MQ=255)
gAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCg < 1:2482518/71‑1 (MQ=255)
gAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCg < 1:692491/71‑1 (MQ=255)
gAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCg < 1:1545995/71‑1 (MQ=255)
gAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCg < 1:909779/71‑1 (MQ=255)
gCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCa < 1:2413617/71‑1 (MQ=255)
cTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTccg < 1:3413191/45‑1 (MQ=255)
cTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTccg < 1:3379662/45‑1 (MQ=255)
cTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTccg < 1:3681731/45‑1 (MQ=255)
cTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTccg < 1:2837370/45‑1 (MQ=255)
cTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTccg < 1:3876710/45‑1 (MQ=255)
cTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTccg < 1:2031517/45‑1 (MQ=255)
cTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAg < 1:1248662/71‑1 (MQ=255)
aGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTg < 1:835481/70‑1 (MQ=255)
aGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTg < 1:1323737/70‑1 (MQ=255)
aGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTg < 1:635008/70‑1 (MQ=255)
aGGTTCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTg < 1:1936727/70‑1 (MQ=255)
ttCGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTgcgc > 1:1157564/1‑70 (MQ=255)
tCGCTGCCCGTATTCACATCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTgcgcg > 1:634741/1‑70 (MQ=255)
cGCTGACCGTATTCACATCTCGTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTgcgcgc > 1:3478658/1‑70 (MQ=255)
cGCTGACCGTATTCACATCTCGTTTCGGCAGTccgcc < 1:2254773/37‑1 (MQ=255)
gACCGTATTCACATCTCGTTTCGGCAGTCCGCCGTTGCTGTCACGACCGATTTGCAGGCTGCGCGCCAGtt > 1:850372/1‑71 (MQ=255)
gACCGTATTCACATCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGtt > 1:1500685/1‑71 (MQ=255)
gTATTCACATCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTttg < 1:1451751/71‑1 (MQ=255)
gTATTCACATCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTttg < 1:3317947/71‑1 (MQ=255)
ttCACATCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTttgtt < 1:880879/70‑1 (MQ=255)
cacaTCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGc < 1:1665621/70‑1 (MQ=255)
cacaTCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGc < 1:3634072/70‑1 (MQ=255)
caTCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAgg > 1:622040/1‑47 (MQ=255)
caTCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGttt > 1:977122/1‑61 (MQ=255)
caTCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGttt > 1:1182496/1‑61 (MQ=255)
aTCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGttt < 1:4260380/60‑1 (MQ=255)
aTCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGttt < 1:1640253/60‑1 (MQ=255)
ctcGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTg > 1:2689839/1‑70 (MQ=255)
ctcGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTg > 1:2629945/1‑70 (MQ=255)
ctcGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTg > 1:643685/1‑70 (MQ=255)
tcGTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGca > 1:2436366/1‑71 (MQ=255)
cGTTTCGGCAGTCCGCCGTTGCTGGCAGGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGca > 1:2084265/1‑70 (MQ=255)
cGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGca > 1:1508093/1‑70 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTg < 1:1110531/67‑1 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTg < 1:3971871/67‑1 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTg < 1:3979365/67‑1 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTg < 1:794692/67‑1 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGcaca < 1:2386090/71‑1 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGcac < 1:1023830/70‑1 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGcac < 1:2038525/70‑1 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGcac < 1:3771930/70‑1 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGca < 1:1417486/69‑1 (MQ=255)
gTTTCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCACGCTGCGCGCCAGTTTTTGTTGCCACTGcac < 1:2706163/70‑1 (MQ=255)
tCGGCGGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGCACATg > 1:1311230/1‑70 (MQ=255)
cggcggTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCa > 1:1732475/1‑60 (MQ=255)
cggcggTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCa > 1:839413/1‑60 (MQ=255)
gCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGCACATGGTGa < 1:35136/71‑1 (MQ=255)
gCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGCACATGGTGa < 1:1056137/71‑1 (MQ=255)
|
ACCCTCTGAATCCTGGTGGAATTTGGCTGTCAGGTTCGCTGACCGTATTCACATCTCGTTTCGGCAGTCCGCCGTTGCTGGCACGACCGATTTGCAGGCTGCGCGCCAGTTTTTGTTGCCACTGCACATGGTGA > minE/2947270‑2947403
|
| 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
