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 |
836,443 |
A→G |
32.1% |
V387V (GTA→GTG) |
narH → |
nitrate reductase 1, beta (Fe‑S) subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 836,443 | 0 | A | G | 32.1%
| 68.8
/ 42.7
| 56 | V387V (GTA→GTG) | narH | nitrate reductase 1, beta (Fe‑S) subunit |
| Reads supporting (aligned to +/- strand): ref base A (21/17); new base G (6/12); total (27/29) |
| Fisher's exact test for biased strand distribution p-value = 1.58e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AGACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCT > minE/836380‑836511
|
agACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATc > 1:1267636/1‑71 (MQ=255)
agACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATc > 1:57277/1‑71 (MQ=255)
agACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATc > 1:2603199/1‑71 (MQ=255)
gACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCt < 1:5278793/71‑1 (MQ=255)
gACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCt < 1:56326/71‑1 (MQ=255)
tGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATc < 1:4638752/71‑1 (MQ=255)
tGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATc < 1:3902555/71‑1 (MQ=255)
ggTAGCAACGGCATTCTGCCAGACGTCGAATGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGAc > 1:2362281/1‑71 (MQ=255)
ggTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGa < 1:423820/70‑1 (MQ=255)
ggTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGa < 1:2075581/70‑1 (MQ=255)
ggTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGAc > 1:5250598/1‑71 (MQ=255)
gTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTa > 1:4066757/1‑47 (MQ=255)
gTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTa > 1:3994180/1‑47 (MQ=255)
gTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGAcc > 1:1523098/1‑71 (MQ=255)
gCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGAccgcc > 1:2224747/1‑71 (MQ=255)
aaCGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGa < 1:2640002/55‑1 (MQ=255)
aaCGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGa < 1:136734/55‑1 (MQ=255)
aaCGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGa < 1:5342355/55‑1 (MQ=255)
aaCGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCgg > 1:3747422/1‑71 (MQ=255)
aCGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATc < 1:1697224/57‑1 (MQ=255)
aCGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGt > 1:28786/1‑71 (MQ=255)
aCGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGt < 1:1931873/71‑1 (MQ=255)
tCTGCCAGACGTCAAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATAcc > 1:3861722/1‑70 (MQ=255)
tGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCaaa > 1:2621459/1‑71 (MQ=255)
aGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCgg < 1:2195677/71‑1 (MQ=255)
gACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGt < 1:386904/71‑1 (MQ=255)
gTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACt > 1:2737099/1‑71 (MQ=255)
gTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACt > 1:2060746/1‑71 (MQ=255)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCaa < 1:2988772/37‑1 (MQ=21)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCaa < 1:5196247/37‑1 (MQ=21)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCaa < 1:1288919/37‑1 (MQ=21)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCaa < 1:5113463/37‑1 (MQ=21)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCaa < 1:210936/37‑1 (MQ=21)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATatgtt < 1:5129562/43‑3 (MQ=16)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGag > 1:5576633/1‑45 (MQ=16)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCggc < 1:4324141/53‑2 (MQ=255)
tCGAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCggc < 1:4330503/53‑2 (MQ=255)
cGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTgc > 1:3698793/1‑71 (MQ=255)
cGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTgc > 1:3473738/1‑71 (MQ=255)
gAAAGCCTGCGTATTCCGGTGCAATATCTCGCCaa > 1:3710952/1‑35 (MQ=16)
gAAAGCCTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTa > 1:1249682/1‑66 (MQ=255)
aGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTgcgcg > 1:1105263/1‑70 (MQ=255)
ccTGAGTATTCCGGTACAGTATCTGGCGAATCTGCTGa > 1:3340767/1‑38 (MQ=255)
cTGCGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCt < 1:2254244/71‑1 (MQ=255)
cTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACt < 1:2687358/71‑1 (MQ=255)
cGTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGa < 1:4432431/70‑1 (MQ=255)
cGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGaa < 1:4110428/71‑1 (MQ=255)
cGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGa > 1:3630906/1‑70 (MQ=255)
gTATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGaa > 1:1837881/1‑70 (MQ=255)
tATTCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCt < 1:1188187/66‑1 (MQ=255)
tATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACt < 1:1475079/57‑1 (MQ=255)
ttCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACg < 1:1596027/70‑1 (MQ=255)
ttCCGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACg > 1:401318/1‑70 (MQ=255)
tCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTa > 1:65595/1‑71 (MQ=255)
ccGGTGCAATATCTCGCCAATATGTTGAGTGCCGGCGATACCGGTCCGGTACTGCGGGCGCTGAAACGGAt > 1:1989129/1‑71 (MQ=255)
ccGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTAt > 1:4710526/1‑71 (MQ=255)
ccGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTAt > 1:1161640/1‑71 (MQ=255)
gTACAGTATCTGGCGAATCTGCTGACCGCCGGAGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCt < 1:537934/71‑1 (MQ=255)
aCAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCt < 1:1362446/69‑1 (MQ=255)
|
AGACGCGGGTGAGCTGGGTAGCAACGGCATTCTGCCAGACGTCGAAAGCCTGCGTATTCCGGTACAGTATCTGGCGAATCTGCTGACCGCCGGTGATACCAAACCGGTACTGCGCGCACTGAAACGTATGCT > minE/836380‑836511
|
| 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
