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 |
|
A71 F1 I1 R1
|
18 |
59.4 |
3821164 |
95.9% |
3664496 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,911,972 |
(T)7→6 |
intergenic (‑173/‑150) |
yifB ← / → ilvL |
predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,911,966 | 0 | T | . | 98.3%
| 277.9
/ ‑1.4
| 58 | intergenic (‑167/‑156) | yifB/ilvL | predicted bifunctional enzyme and transcriptional regulator/ilvG operon leader peptide |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base . (27/30); total (27/31) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.46e-01 |
GAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAAT > REL606/3911891‑3912037
|
gAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAt < 2:990094/76‑1 (MQ=255)
gAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAt > 2:1644763/1‑76 (MQ=255)
gAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAt < 1:765684/76‑1 (MQ=255)
aaTGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAtt > 1:1116119/1‑76 (MQ=255)
atgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAtttttt < 1:1152227/76‑1 (MQ=255)
gCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAttttttca < 1:766233/76‑3 (MQ=255)
cTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAttttttcac > 2:1081296/1‑73 (MQ=255)
gCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTtcactca < 2:1071791/76‑1 (MQ=255)
aaaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACta > 1:610061/1‑76 (MQ=255)
aaaaTGCAGCAGACAAAGGATGAACTACGAGGAAAGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACta < 1:986939/76‑1 (MQ=255)
aaaaTGCAGCAGACAAAGGATGAACTACGAGGAAAGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACta < 1:986931/76‑1 (MQ=255)
aaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtat > 2:259405/1‑76 (MQ=255)
aaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtat > 2:1897587/1‑76 (MQ=255)
tGCAGCGGACAGAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtatttt < 1:1360337/76‑1 (MQ=255)
cAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtattttat < 2:5715/76‑1 (MQ=255)
aGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtattttatt > 1:1562594/1‑76 (MQ=255)
cGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTattttatttt < 2:95315/76‑1 (MQ=255)
cGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTattttatttt < 2:686739/76‑1 (MQ=255)
ggACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTattttatttta > 2:1134768/1‑75 (MQ=255)
ggACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTAttttt < 2:1433320/76‑1 (MQ=255)
gACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTa < 1:654061/76‑1 (MQ=255)
aCAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaa < 2:1635034/76‑1 (MQ=255)
cAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaa < 1:519654/76‑1 (MQ=255)
aaaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaaa > 1:1331667/1‑76 (MQ=255)
aaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaaaa > 1:1439957/1‑76 (MQ=255)
aaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaaaa > 1:1439974/1‑76 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTaaaaaa < 1:388113/76‑1 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAaac < 1:793324/76‑1 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAaac < 2:1539153/76‑1 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAaac < 1:1032325/76‑1 (MQ=255)
aTGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAaacaa > 2:91916/1‑76 (MQ=255)
gAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAacaaca < 1:172356/76‑1 (MQ=255)
aaCTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAAcaacaa < 1:567541/76‑1 (MQ=255)
cTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAAtt > 2:1875719/1‑76 (MQ=255)
cTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAAtt < 2:997112/76‑1 (MQ=255)
cTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAAtt > 1:743713/1‑76 (MQ=255)
cTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAAtt > 1:411855/1‑76 (MQ=255)
tACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAAttt < 1:62909/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTta < 1:988691/76‑1 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTta > 2:1825810/1‑76 (MQ=255)
aCGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTta < 1:1810482/76‑1 (MQ=255)
aGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTatat > 2:297180/1‑76 (MQ=255)
aGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTatat > 1:1311584/1‑76 (MQ=255)
ggAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATAtt < 2:476076/76‑1 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGa > 2:770198/1‑76 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGa > 2:1556599/1‑76 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGa > 2:1556580/1‑76 (MQ=255)
gggAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGaaa < 2:1493611/76‑1 (MQ=255)
gggAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGaaa < 2:1493633/76‑1 (MQ=255)
aacaacATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAatta > 1:44194/1‑76 (MQ=255)
aacaacATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAatta > 2:1828169/1‑76 (MQ=255)
aacaacATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAatta > 2:215779/1‑76 (MQ=255)
caacaTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAattatt > 2:1685676/1‑76 (MQ=255)
aacaTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAAttatta < 1:274911/76‑1 (MQ=255)
aacaTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAAttatta > 2:268263/1‑76 (MQ=255)
acaTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTaa < 1:72466/76‑1 (MQ=255)
caTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTaaa < 1:827647/76‑1 (MQ=255)
aTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAAc > 1:552006/1‑76 (MQ=255)
tCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGc < 1:796552/76‑1 (MQ=255)
aTACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcat < 2:1810855/76‑1 (MQ=255)
tACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatc > 1:890947/1‑76 (MQ=255)
tACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatc < 2:1302133/76‑1 (MQ=255)
cTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatcat < 1:1443080/76‑1 (MQ=255)
aTTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaaaa > 1:1518050/1‑76 (MQ=255)
ttGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAAt > 2:1851984/1‑76 (MQ=255)
|
GAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAAT > REL606/3911891‑3912037
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
