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 |
|
A6 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,467,908 |
T→A |
26.3% |
intergenic (+67/+61) |
ubiG → / ← yfaL |
bifunctional 3‑demethylubiquinone‑9 3‑methyltransferase and 2‑octaprenyl‑6‑hydroxy phenol methylase/adhesin |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,467,908 | 0 | T | A | 26.3%
| 128.8
/ 36.4
| 59 | intergenic (+67/+61) | ubiG/yfaL | bifunctional 3‑demethylubiquinone‑9 3‑methyltransferase and 2‑octaprenyl‑6‑hydroxy phenol methylase/adhesin |
| Reads supporting (aligned to +/- strand): ref base T (26/17); new base A (8/7); total (34/25) |
| Fisher's exact test for biased strand distribution p-value = 7.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GTGAGGTTGATGTTTGGCCGCGCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTACCATTT > minE/1467838‑1467977
|
gTGAGGTTGATGTTTGGCCGCGCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCt < 1:1940781/71‑1 (MQ=255)
gTTGATGTTTGGCCGCGCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTcc‑‑cc < 1:843942/70‑1 (MQ=255)
tGATGTTTGGCCGCGCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGt > 1:2447871/1‑70 (MQ=255)
tGTTTGGCCGCGCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGc > 1:3144410/1‑71 (MQ=255)
tGTTTGGCCGCGCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGc < 1:2023096/71‑1 (MQ=255)
tGGCCGCGCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGa > 1:3473915/1‑71 (MQ=255)
cgcgCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAg < 1:3733454/71‑1 (MQ=255)
cgcgCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAg < 1:468940/71‑1 (MQ=255)
cgcCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGc < 1:150269/71‑1 (MQ=255)
ccAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGt > 1:5322616/1‑71 (MQ=255)
ccAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGt > 1:1534616/1‑71 (MQ=255)
cAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGtt < 1:1838129/71‑1 (MQ=255)
cAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGtt < 1:647468/71‑1 (MQ=255)
aaTGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGtt > 1:125423/1‑70 (MQ=255)
ccTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGt > 1:5569488/1‑49 (MQ=255)
tGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCg < 1:2097987/46‑1 (MQ=255)
aTGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCa > 1:2453231/1‑71 (MQ=255)
aTGCGACGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTAcg < 1:5374231/71‑1 (MQ=0)
aTGCGACGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTAcg > 1:4963371/1‑71 (MQ=0)
aTGCGACGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTAcg > 1:4890722/1‑71 (MQ=0)
aTGCGACGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTAc < 1:4719260/70‑1 (MQ=0)
tGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCg > 1:37603/1‑43 (MQ=255)
tGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCg > 1:1700515/1‑43 (MQ=255)
tGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCa < 1:4427823/70‑1 (MQ=255)
tGCGACGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTAcgc > 1:1345902/1‑71 (MQ=0)
gCGACGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCATCCGTAGGCCGGATAAGGCGTTTAcgcc > 1:29656/1‑71 (MQ=0)
gCGACGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCATCCGTAGGCCGGATAAGGCGTTTAcgcc > 1:4485858/1‑71 (MQ=0)
cGACGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCATCCGTAGGCCGGATAAGGCGTTTAcgcc < 1:4567717/70‑1 (MQ=0)
aCGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCgg > 1:1858644/1‑71 (MQ=255)
aCGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTACGCCGCa > 1:1204526/1‑71 (MQ=0)
aCGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTACGCCGCa > 1:3608400/1‑71 (MQ=0)
aCGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTACGCCGCa < 1:3533806/71‑1 (MQ=0)
cGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTACGCCGCAt < 1:4720923/71‑1 (MQ=0)
cGCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTACGCCGCAt < 1:5289091/71‑1 (MQ=0)
gCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGc > 1:3375370/1‑70 (MQ=255)
gCTTG‑CGCGTCTTATCAGGCCTACAAATTCCCGCACCATCCGTAGGCCGGATAAGGCGTTTACGCCGCATc < 1:445947/71‑1 (MQ=0)
tgcgcgTCTTATCAGGCCTACAAATTCCCGCACCCTCCGTAGGCCGGATAAGGCGTTTACGCCGCATCCgg > 1:3564206/3‑71 (MQ=2)
acgcgTCTTATCAGGCCTACAAATTCCCGCGCCATCCGTAGGCCGGATAAGGCGTTTACGCCGCATCCg < 1:2023343/68‑1 (MQ=0)
gcgTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGc > 1:338519/1‑71 (MQ=255)
gcgTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGc > 1:4990484/1‑71 (MQ=255)
gcgTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGc > 1:5225554/1‑71 (MQ=255)
gcgTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGc > 1:4659247/1‑71 (MQ=255)
cgTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGcc < 1:3636583/71‑1 (MQ=255)
ttATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGa > 1:4731841/1‑69 (MQ=255)
ttATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGAc > 1:2112006/1‑70 (MQ=255)
ttATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGAc > 1:5660861/1‑70 (MQ=255)
tACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGAt > 1:545890/1‑71 (MQ=255)
cAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAAc > 1:2670849/1‑49 (MQ=255)
cAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTa > 1:1430356/1‑71 (MQ=255)
cAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTa > 1:5600342/1‑71 (MQ=255)
cAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTa > 1:1377418/1‑71 (MQ=255)
aaaT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCa < 1:3969461/39‑1 (MQ=255)
aaaT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCa < 1:108964/39‑1 (MQ=255)
aaaT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTAc > 1:695619/1‑71 (MQ=255)
aT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAAACGTGCCGACTAGACAGTGATTACCa > 1:5178548/1‑71 (MQ=255)
t‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTACCAt < 1:2224276/71‑1 (MQ=255)
cTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTACCAttt < 1:2905643/71‑1 (MQ=255)
cTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTACCAttt < 1:3436856/71‑1 (MQ=255)
cTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTACCAttt < 1:3545106/71‑1 (MQ=255)
cTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTACCAttt < 1:3545542/71‑1 (MQ=255)
|
GTGAGGTTGATGTTTGGCCGCGCCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTACAAAT‑‑‑‑GCTCC‑‑CCGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAACCGTGCCGACTAGACAGTGATTACCATTT > minE/1467838‑1467977
|
| 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
