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 |
2,662,691 |
C→T |
39.7% |
L46L (TTG→TTA) |
rtcR ← |
sigma 54‑dependent transcriptional regulator of rtcBA expression |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,662,691 | 0 | C | T | 39.7%
| 46.6
/ 61.5
| 93 | L46L (TTG→TTA) | rtcR | sigma 54‑dependent transcriptional regulator of rtcBA expression |
| Reads supporting (aligned to +/- strand): ref base C (19/37); new base T (11/26); total (30/63) |
| Fisher's exact test for biased strand distribution p-value = 8.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCTGGCGAAACGCTGGCGATATCGCGTTTAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAGT > minE/2662623‑2662739
|
tCTGGCGAAACGCTGGCGATATCGCGTTTAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGcaac < 1:2550573/69‑1 (MQ=255)
atCGCGTTTAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGa > 1:489741/1‑68 (MQ=255)
ttAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGAt < 1:246244/69‑1 (MQ=255)
ttAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGAt < 1:687130/69‑1 (MQ=255)
ttAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGAt < 1:835668/69‑1 (MQ=255)
tAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGAtt > 1:3151558/1‑69 (MQ=255)
tAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGAt < 1:3076120/68‑1 (MQ=255)
tAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGAt < 1:650300/68‑1 (MQ=255)
gTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTcc > 1:406770/1‑42 (MQ=255)
gTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTcc > 1:699461/1‑42 (MQ=255)
gTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTcc > 1:2776108/1‑42 (MQ=255)
gTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTcc > 1:1483896/1‑42 (MQ=255)
gTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTcc > 1:1636627/1‑42 (MQ=255)
gTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTcc > 1:2471795/1‑42 (MQ=255)
gTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTcc > 1:2310094/1‑42 (MQ=255)
gTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTcc > 1:1290021/1‑42 (MQ=255)
gTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTcc > 1:3082361/1‑42 (MQ=255)
tttCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGAt < 1:3342976/62‑1 (MQ=255)
aTAGCGAGGGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:55602/44‑1 (MQ=37)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:1909686/44‑1 (MQ=38)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:1703929/44‑1 (MQ=38)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:1667511/44‑1 (MQ=38)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:3280043/44‑1 (MQ=38)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:1615559/44‑1 (MQ=38)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:1470944/44‑1 (MQ=38)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:1454524/44‑1 (MQ=38)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:2794569/44‑1 (MQ=38)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:346974/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:2322287/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:1163004/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:1367879/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:2867891/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:2665142/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:708057/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:2692919/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa < 1:1797527/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa < 1:1593613/69‑1 (MQ=255)
aTAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa < 1:42392/69‑1 (MQ=255)
tAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGccgatcg < 1:1161679/43‑1 (MQ=38)
tAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:2989013/68‑1 (MQ=255)
tAGCGAGCGCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:3046492/68‑1 (MQ=255)
tAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa < 1:1561075/68‑1 (MQ=255)
agcgagcgCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:3343003/67‑1 (MQ=255)
agcgagcgCGAGCGGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:1955225/67‑1 (MQ=255)
agcgagcgCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa > 1:6111/1‑67 (MQ=255)
gcgagcgcgagcGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCATCGATTCTTGCTGGCATa > 1:970175/1‑66 (MQ=255)
gcgagcgcgagcGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGAt < 1:2569264/53‑1 (MQ=255)
gcgagcgcgagcGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa > 1:1188771/1‑66 (MQ=255)
gcgagcgcgagcGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa > 1:1926787/1‑66 (MQ=255)
gcgagcgcgagcGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa > 1:98355/1‑66 (MQ=255)
gcgagcgcgagcGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa > 1:1290517/1‑66 (MQ=255)
gcgagcgcgagcGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa > 1:1378662/1‑66 (MQ=255)
gcgagcgcgagcGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATa > 1:774344/1‑66 (MQ=255)
gagcgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:212182/69‑1 (MQ=255)
gagcgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:111227/69‑1 (MQ=255)
gagcgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:116077/69‑1 (MQ=255)
gagcgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:1628432/69‑1 (MQ=255)
gagcgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:2674322/69‑1 (MQ=255)
gagcgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:2524031/69‑1 (MQ=255)
gagcgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:2471419/69‑1 (MQ=255)
cagcgcgtgcgGGCGTCGTGCAACTATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:313677/68‑1 (MQ=255)
agcgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:3347099/68‑1 (MQ=255)
gcgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:1507318/67‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCtt < 1:1431412/52‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCtt < 1:164516/52‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:825495/69‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:348728/69‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:984866/69‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:3279480/69‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:2082057/69‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:3010766/69‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:2106219/69‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:128661/69‑1 (MQ=255)
cgcgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:2698397/69‑1 (MQ=255)
cgcgagcgGGCGTCGCGCAACAATTCCAGTCGATCGATGACCAACGATTCCTGCTGGCATAAACAGAgt < 1:910220/69‑1 (MQ=255)
cgagcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:1405917/67‑1 (MQ=255)
agcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAgt < 1:3360311/65‑1 (MQ=255)
gcgGGCGTCGTGCAATAATTCCGGCCGATCGATAAct > 1:3123315/1‑36 (MQ=19)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:2768351/1‑36 (MQ=25)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:2591250/1‑36 (MQ=25)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:2398931/1‑36 (MQ=25)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:2123060/1‑36 (MQ=25)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:2794144/1‑36 (MQ=25)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:684072/1‑36 (MQ=25)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:1628723/1‑36 (MQ=25)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:141048/1‑36 (MQ=25)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:1364824/1‑36 (MQ=25)
gcgGGCGTCGTGCAATAATTCCAGCCGATCGATAAct > 1:1361706/1‑36 (MQ=25)
gcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGAt < 1:938953/43‑1 (MQ=255)
gcgGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACag < 1:1150052/61‑1 (MQ=255)
cgGGCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:3172890/55‑1 (MQ=255)
gggCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:2411379/54‑1 (MQ=255)
ggCGTCGTGCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:1295052/53‑1 (MQ=255)
gCAATAATTCCAGCCGATCGATAACTAACGATTCTTGCTGGCATa < 1:1603394/45‑1 (MQ=255)
|
TCTGGCGAAACGCTGGCGATATCGCGTTTAAGCGTTTCAAATAGCGAGCGCGAGCGGGCGTCGTGCAACAATTCCAGTCGATCGATGACCAACGATTCTTGCTGGCATAAACAGAGT > minE/2662623‑2662739
|
| 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
