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 |
|
A59 F1 I1 R1
|
21 |
55.8 |
3542164 |
96.7% |
3425272 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,603 |
A→G |
intergenic (‑44/‑156) |
iclR ← / → metH |
DNA‑binding transcriptional repressor/B12‑dependent methionine synthase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,603 | 0 | A | G | 98.3%
| 244.8
/ ‑4.3
| 59 | intergenic (‑44/‑156) | iclR/metH | DNA‑binding transcriptional repressor/B12‑dependent methionine synthase |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (30/28); total (30/29) |
| Fisher's exact test for biased strand distribution p-value = 4.92e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01 |
GCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCATGTTGCGTGGT > REL606/4202530‑4202674
|
gCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTCTTAtt < 2:1508095/76‑1 (MQ=255)
ccGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTttgttg > 2:1592914/1‑76 (MQ=255)
cgTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTa > 1:487921/1‑76 (MQ=255)
gTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAg < 1:1187609/76‑1 (MQ=255)
tttCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGc < 2:325467/76‑1 (MQ=255)
ttCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCt > 2:736466/1‑76 (MQ=255)
cgcgGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTaa > 1:590334/1‑76 (MQ=255)
gcgGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATCTTCATTTTTGTTGTTAGCTAAt < 2:924997/76‑1 (MQ=255)
cgGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATg < 2:748451/76‑1 (MQ=255)
cgGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATg < 2:23815/76‑1 (MQ=255)
ggAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCa > 1:606066/1‑76 (MQ=255)
ggAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCa > 1:1616288/1‑76 (MQ=255)
aaTGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAAt > 2:1362470/1‑76 (MQ=255)
aTGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATa > 1:1027616/1‑76 (MQ=255)
aTGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATa < 2:594336/76‑1 (MQ=255)
tGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAg > 2:1426966/1‑76 (MQ=255)
gCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCt < 2:683341/76‑1 (MQ=255)
gACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGa < 2:1325757/76‑1 (MQ=255)
cATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACt > 2:452733/1‑76 (MQ=255)
aTGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTg > 1:1738491/1‑76 (MQ=255)
gACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGAt > 1:174718/1‑76 (MQ=255)
gACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGAt < 1:574158/76‑1 (MQ=255)
gACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGAt < 2:355226/76‑1 (MQ=255)
aCAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATc > 1:95826/1‑76 (MQ=255)
aGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCg > 1:742000/1‑76 (MQ=255)
tctcCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGAt > 1:515827/1‑76 (MQ=255)
tctcCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGAt > 1:1392891/1‑76 (MQ=255)
tctcCTTTTTCTGTATCGTGGAAATCAATTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGAt < 1:1479060/76‑1 (MQ=255)
ctcCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATg < 1:1474212/76‑1 (MQ=255)
ctcCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATg > 1:666924/1‑76 (MQ=255)
ctcCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATg < 1:330446/76‑1 (MQ=255)
ctcCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATg < 1:80492/76‑1 (MQ=255)
tcCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGa > 1:483414/1‑76 (MQ=255)
ccTTTTTCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAg < 1:1002987/76‑1 (MQ=255)
tttttCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGtt < 2:1358426/76‑1 (MQ=255)
ttttCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTa < 1:1737565/76‑1 (MQ=255)
ttCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAAt < 1:1642346/76‑1 (MQ=255)
tCTGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATg > 1:1496445/1‑76 (MQ=255)
tGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGtt > 1:987363/1‑76 (MQ=255)
tGTATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGtt > 2:1486468/1‑76 (MQ=255)
tGNATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGtt > 2:1246634/1‑76 (MQ=255)
tATCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGa < 1:1275609/76‑1 (MQ=255)
aTCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGaa > 1:771810/1‑76 (MQ=255)
aTCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGaa > 1:364081/1‑76 (MQ=255)
tCGTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAAc < 2:817843/76‑1 (MQ=255)
gTGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACaa < 1:126492/76‑1 (MQ=255)
tGGAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACaaa > 2:1370914/1‑76 (MQ=255)
ggAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAAt > 2:1270996/1‑76 (MQ=255)
ggAAATCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAAt > 1:1093332/1‑76 (MQ=255)
aaaTCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAAtct > 1:779404/1‑76 (MQ=255)
aaTCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAAtctc < 1:1592914/76‑1 (MQ=255)
aTCATTTTCATTTTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCa < 1:1696184/76‑1 (MQ=255)
tcattttcatttTTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCAt < 1:1222291/76‑1 (MQ=255)
attttcattttTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCATGt < 1:484304/76‑1 (MQ=255)
attttcattttTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCATGt < 1:755714/76‑1 (MQ=255)
ttttcattttTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCATGtt < 2:1616288/76‑1 (MQ=255)
ttcattttTGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCATGTTGc > 1:873153/1‑76 (MQ=255)
tttttGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCATGTTGCgtgg > 1:1196517/1‑76 (MQ=255)
ttttGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCATGTTGCgtggt < 2:245026/76‑1 (MQ=255)
ttttGTTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCATGTTGCgtggt > 1:958653/1‑76 (MQ=255)
|
GCCGCGTTTCGCGGGAATGGGTGCGACCATGACAGTCTCCTTTTTCTGTATCGTGGAAATCATTTTCATTTTTATTGTTAGCTAATGCAATAGTTGCTGAACTGATCCGATGAGTTAATGTTGAACAAATCTCATGTTGCGTGGT > REL606/4202530‑4202674
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
