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 |
|
A22 F1 I1 R1
|
17 |
44.7 |
2806446 |
96.5% |
2708220 |
76.0 |
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 | . | 96.7%
| 136.5
/ ‑1.8
| 30 | 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 . (9/20); total (9/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01 |
GAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAA > REL606/3911891‑3912036
|
gAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAt < 1:729151/76‑1 (MQ=255)
aaTGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAtt > 1:1000490/1‑76 (MQ=255)
tgCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAAttttttc < 2:758143/76‑2 (MQ=255)
aaaaaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTcactcact < 1:663109/76‑1 (MQ=255)
aaaTGCAGCGGACAAAGGATGAACTGCGNGGAAGGGAAAGACATTCAGACTGAAATTGAA‑TTTTTTCACTCACtat < 1:122418/76‑1 (MQ=255)
aaTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtatt < 2:1060047/76‑1 (MQ=255)
aTGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACtatt < 1:879770/76‑1 (MQ=255)
gCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACtattttattt < 2:494579/76‑1 (MQ=255)
ggACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTAttttt < 2:836200/76‑1 (MQ=255)
aCAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaa < 1:864117/76‑1 (MQ=255)
cAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaa > 2:610292/1‑76 (MQ=255)
cAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaa < 1:240615/76‑1 (MQ=255)
aaGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTaaaaa < 2:29603/76‑1 (MQ=255)
aGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTGTTaaaaaa < 2:164394/76‑1 (MQ=255)
ggATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAaac < 1:576058/76‑1 (MQ=255)
tGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAaacaac > 1:1185566/1‑76 (MQ=255)
aaCTAGAAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAAcaacaa < 2:1335950/76‑1 (MQ=255)
aaCTACGAGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAAcaacaa < 2:1237887/76‑1 (MQ=255)
aGGAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTatat < 1:401522/76‑1 (MQ=255)
gAAGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTg < 1:465843/76‑1 (MQ=255)
aaGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGa > 1:1102267/1‑76 (MQ=255)
aGGGAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGaa > 1:903414/1‑76 (MQ=255)
gggAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGaaa < 1:1103656/76‑1 (MQ=255)
ggAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAat < 1:254151/76‑1 (MQ=255)
gAACAACATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAatt < 1:416694/76‑1 (MQ=255)
aacaacATTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAatta > 2:818497/1‑76 (MQ=255)
acaacaTTCATACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAattat < 1:899607/76‑1 (MQ=255)
aTTCATACTGAAATTGAA‑NTTTTTCACTCACTATTTTATGTTTAAAGAACAACAATTTATATTGAAATTATTAAAc > 1:1339573/1‑76 (MQ=255)
aTACTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcat > 2:749577/1‑76 (MQ=255)
aCTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatca < 1:1165797/76‑1 (MQ=255)
cTGAAATTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGcatcat > 1:657707/1‑76 (MQ=255)
aaaTTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaa > 2:997751/1‑76 (MQ=255)
aTTGAA‑TTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATaaaaa < 1:383648/76‑1 (MQ=255)
|
GAATGATGCTCGCAAAAATGCAGCGGACAAAGGATGAACTACGAGGAAGGGAACAACATTCATACTGAAATTGAATTTTTTTCACTCACTATTTTATTTTTAAAAAACAACAATTTATATTGAAATTATTAAACGCATCATAAAAA > REL606/3911891‑3912036
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 25 ≤ 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
