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 |
832,220 |
T→C |
23.5% |
P226P (CCT→CCC) |
narG → |
nitrate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 832,220 | 0 | T | C | 23.5%
| 117.0
/ 35.2
| 68 | P226P (CCT→CCC) | narG | nitrate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base T (26/26); new base C (6/10); total (32/36) |
| Fisher's exact test for biased strand distribution p-value = 4.08e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.00e-01 |
GTGCACGCTATCTCTCGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTA > minE/832150‑832288
|
gTGCACGCTATCTCTCGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGcctcct < 1:747071/71‑1 (MQ=255)
cGCTATCTCTCGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGtc < 1:168697/71‑1 (MQ=255)
cTATCTCTCGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGtctc < 1:1356289/71‑1 (MQ=255)
tctgtcGCTGCTTGGCGGCACCTGTTTAAGTTTCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCg < 1:3323946/70‑1 (MQ=255)
tctctcGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTcc > 1:5193665/1‑69 (MQ=255)
ctctcGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGc > 1:5165428/1‑70 (MQ=255)
tctcGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGcctcct > 1:725684/1‑59 (MQ=255)
tctcGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGcctcct > 1:1252817/1‑59 (MQ=255)
tctcGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGcctcct > 1:687189/1‑59 (MQ=255)
ctcGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTcc > 1:1235824/1‑66 (MQ=255)
ctcGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTcc > 1:1526610/1‑66 (MQ=255)
ctcGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCaaa > 1:5052580/1‑71 (MQ=255)
tcGCTGCTTGGCGGCACCTGTTTAAGTTTCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCgatg < 1:761100/69‑4 (MQ=255)
tcGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAAc > 1:3511473/1‑71 (MQ=255)
gCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAAcc < 1:569964/70‑1 (MQ=255)
gCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAAcc < 1:2597733/70‑1 (MQ=255)
gATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAAcc < 1:3422109/67‑1 (MQ=255)
ttGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTggg > 1:5620596/1‑69 (MQ=255)
ttGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGc < 1:1200017/71‑1 (MQ=255)
ggCGGTACATGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCg < 1:1009608/70‑1 (MQ=255)
gTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCaa < 1:3585810/71‑1 (MQ=255)
aCTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCa < 1:663507/68‑1 (MQ=255)
cTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAAc < 1:4644879/70‑1 (MQ=255)
cTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACt < 1:163062/71‑1 (MQ=255)
ttGCTTAAGCTTCTACGACTGGTACTGCGACTTGcctcct > 1:4451249/1‑40 (MQ=255)
ttGCTTAAGCTTCTACGACTGGTACTGCGACTTGcctcct > 1:1414845/1‑40 (MQ=255)
ttGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCaa < 1:5615593/52‑1 (MQ=255)
tGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTcc > 1:1723349/1‑47 (MQ=255)
tGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTcc > 1:4719233/1‑47 (MQ=255)
tGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTcc > 1:1707352/1‑47 (MQ=255)
cTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACg < 1:1722190/71‑1 (MQ=255)
tAAGTTTCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGt < 1:3375919/70‑1 (MQ=255)
tAAGTTTCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGt < 1:3382378/70‑1 (MQ=255)
tAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGa > 1:2239762/1‑58 (MQ=255)
tAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGa > 1:5256285/1‑58 (MQ=255)
aaGTTTCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTa < 1:1006427/70‑1 (MQ=255)
aaGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGc > 1:3515463/1‑44 (MQ=255)
aaGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGt < 1:4166571/69‑1 (MQ=255)
tttCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGc < 1:3806603/51‑1 (MQ=255)
tCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGaa > 1:1655704/1‑71 (MQ=255)
tCTACGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGa < 1:3303868/70‑1 (MQ=255)
cTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGa < 1:999977/69‑1 (MQ=255)
cTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGa < 1:2123804/69‑1 (MQ=255)
cTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAAt > 1:3042141/1‑71 (MQ=255)
tACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAAt > 1:1807426/1‑70 (MQ=255)
tACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATc > 1:1396551/1‑71 (MQ=255)
tACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATc > 1:1283628/1‑71 (MQ=255)
aCGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAAt > 1:4469270/1‑69 (MQ=255)
cGACTGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAATc < 1:5684819/69‑1 (MQ=255)
cGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAAt < 1:90272/68‑1 (MQ=255)
cGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATct > 1:4196601/1‑70 (MQ=255)
cTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATctgctg < 1:1065204/71‑1 (MQ=255)
tGGTATTGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCgg < 1:1009180/61‑1 (MQ=255)
ggTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGAc > 1:5140846/1‑71 (MQ=255)
ttGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGaa < 1:2171945/57‑1 (MQ=255)
ttGCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAATCTGCCGAc > 1:1859496/2‑67 (MQ=255)
cTGCGTCTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACt < 1:1194552/68‑1 (MQ=255)
cTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGa > 1:3899584/1‑39 (MQ=255)
cTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCa < 1:2842309/42‑1 (MQ=255)
cTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCa < 1:3609614/42‑1 (MQ=255)
gCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTa > 1:3097322/1‑70 (MQ=255)
gCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTa > 1:180735/1‑70 (MQ=255)
gCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGa > 1:3131241/1‑46 (MQ=255)
gCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAAt > 1:3352922/1‑57 (MQ=255)
gCGACCTGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAAt > 1:5092699/1‑57 (MQ=255)
gCGACATGCCGCCCGCCTCGCCGATGACCTGGGGCGAGCAAACCGACGTACCGGAATCTGCCGACTGGTa > 1:2420630/1‑70 (MQ=255)
cGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTg > 1:2286052/1‑66 (MQ=255)
cGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTAc < 1:1238824/70‑1 (MQ=255)
cGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTAc < 1:3566441/70‑1 (MQ=255)
cGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACa < 1:4997379/71‑1 (MQ=255)
cGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACa < 1:945171/71‑1 (MQ=255)
gACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACaa < 1:3450789/71‑1 (MQ=255)
aCTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAAc > 1:3771725/1‑71 (MQ=255)
ttGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTc > 1:418955/1‑71 (MQ=255)
cctcctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAg > 1:2857378/1‑71 (MQ=255)
ctcctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTa > 1:4903174/1‑41 (MQ=255)
ctcctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTa > 1:4872348/1‑41 (MQ=255)
ctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTa > 1:5526511/1‑70 (MQ=255)
ctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTa > 1:3282601/1‑70 (MQ=255)
ctGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGATa > 1:2386521/1‑70 (MQ=255)
|
GTGCACGCTATCTCTCGCTGATTGGCGGTACTTGCTTAAGCTTCTACGACTGGTACTGCGACTTGCCTCCTGCGTCTCCGCAAACCTGGGGCGAGCAAACTGACGTACCGGAATCTGCTGACTGGTACAACTCCAGCTA > minE/832150‑832288
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
