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 |
2,131,466 |
(A)9→8 |
intergenic (‑125/+175) |
gatY ← / ← fbaB |
D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 2,131,458 | 0 | A | . | 96.3%
| 120.3
/ ‑1.6
| 27 | intergenic (‑117/+183) | gatY/fbaB | D‑tagatose 1,6‑bisphosphate aldolase 2, catalytic subunit/fructose‑bisphosphate aldolase |
| Reads supporting (aligned to +/- strand): ref base A (1/0); new base . (21/5); total (22/5) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.75e-01 |
AATGATTTGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCAAAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGTAAAC > REL606/2131384‑2131528
|
aatgaTTTGTTTTTAAATGTCGAGAAAACGACCACAAAATNNACAATATGAANNTCAATAGAGGAATGAAAGGCaa > 1:1259133/1‑76 (MQ=255)
gaTTTGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCaaaaa > 1:948095/1‑76 (MQ=255)
tGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCaaaaaaaac < 1:378792/76‑2 (MQ=255)
gTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCaaaaaaaacg > 1:998668/1‑74 (MQ=255)
tAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTc > 1:1044336/1‑76 (MQ=255)
tAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTc > 2:22980/1‑76 (MQ=255)
tAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTc > 2:551347/1‑76 (MQ=255)
aaaTGTCGAGATAACGATCACAAAAACGACAATATGNAAATTAAAAGTGGAACGAAAGGC‑AAAAAAAACGGNCTcc > 1:166770/1‑76 (MQ=255)
aTGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATCNAGNAATGAAAGGC‑AAAANAAACGGCCTCCCg > 2:1263055/1‑76 (MQ=255)
aTGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCg < 2:765792/76‑1 (MQ=255)
gagaTAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAggg > 1:921587/1‑76 (MQ=255)
aTAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAg < 2:86036/76‑1 (MQ=255)
aTAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAg > 2:1051932/1‑76 (MQ=255)
aaCGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGcc < 2:635046/76‑1 (MQ=255)
aCGATCACAAAAACGACAATATGAAAATTCATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCg > 2:452949/1‑76 (MQ=255)
aCGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCAAAAAAAAACGGCCTCCCGGAGGGAAGcc > 1:695935/1‑76 (MQ=255)
cGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGc > 2:1078380/1‑76 (MQ=255)
aTCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGcaa < 2:1230366/76‑1 (MQ=255)
cacaAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGcaaca < 2:426464/76‑1 (MQ=255)
aaaaaCGACAATATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAg > 2:1095423/1‑76 (MQ=255)
aCGAAAAAATAAANATTAAAAGAGGAATNAANTGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTgcg < 2:1261776/76‑1 (MQ=255)
aaTATGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTgg > 2:121858/1‑76 (MQ=255)
tatGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGtt > 1:798334/1‑76 (MQ=255)
tatGAAAATTAATAGAGGAATGAAAAGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGtt > 2:451180/1‑76 (MQ=255)
atGAAAATTAATAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGttt > 1:386207/1‑76 (MQ=255)
aaTAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGa > 1:236031/1‑76 (MQ=255)
aaTAGAGGAATGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGa > 2:621358/1‑76 (MQ=255)
aTAGAGGAATGAAAGG‑AAAAAAAACCGGCCCCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGAt < 2:163675/76‑1 (MQ=255)
agagGAATGAAAGGC‑AAAAAAAACGGTCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGGGGTTTTATGCAGGATgc > 1:151855/1‑76 (MQ=255)
agaaaTAAAAGGC‑AAAAAAACCGGCCCCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATgcgg < 2:670750/73‑1 (MQ=255)
agGAATGAAAGGC‑AAAAAAAACGGCCCCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATgcgg < 2:670769/76‑1 (MQ=255)
aaTGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGt > 1:1198283/1‑76 (MQ=255)
aTGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGTa > 2:1103095/1‑76 (MQ=255)
aTGAAAGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGTa > 2:809924/1‑76 (MQ=255)
aaaGGC‑AAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGTAAAc > 1:773454/1‑76 (MQ=255)
|
AATGATTTGTTTTTAAATGTCGAGATAACGATCACAAAAACGACAATATGAAAATTAATAGAGGAATGAAAGGCAAAAAAAAACGGCCTCCCGGAGGGAAGCCGCAACAAAGTGCGCGTGGTTTTATGCAGGATGCGGCGTAAAC > REL606/2131384‑2131528
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
