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 F3 I0 R1
|
328 |
90.1 |
2317887 |
85.2% |
1974839 |
62.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,428,899 |
C→T |
100% |
E228E (GAG→GAA) |
wzzE ← |
Entobacterial Common Antigen (ECA) polysaccharide chain length modulation protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,428,899 | 0 | C | T | 92.6%
| 153.3
/ 3.0
| 54 | E228E (GAG→GAA) | wzzE | Entobacterial Common Antigen (ECA) polysaccharide chain length modulation protein |
| Reads supporting (aligned to +/- strand): ref base C (2/2); new base T (50/0); total (52/2) |
| Fisher's exact test for biased strand distribution p-value = 4.19e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01 |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
GTACATCTGTCGCACTGCGCGAAATATTATGCTGCTCAGCAATTTTCAGCGCCTGCTCAATGCTGTTCATCCGGCGGTCGTAGATGGCTTTCGC > minE/2428844‑2428937
|
gTACATCTGTCGCACTGCGCGAAATATTATGCTGCTCAGCAATTTTCAGCGCCTGCTCAATGCTGtt < 1:1524838/67‑1 (MQ=255)
gTACATCTGTCGCACTGCGCGAAATATTATGCTGCTCAGCAATTTTCAGCGCCTGCTCAATGCTGtt < 1:857742/67‑1 (MQ=255)
tCTGTCGCACTGCGCGAAATATTATGCTGCTCAGCAATTTTCAGCGCCTGCTCAATGc > 1:1707355/1‑58 (MQ=255)
tCTGTCGCACTGCGCGAAATATTATGCTGCTCAGCAATTTTCAGCGCCTGCTCAATGc > 1:458237/1‑58 (MQ=255)
ttaGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:836798/3‑49 (MQ=255)
tCAGCGCCTGTTCGATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:830144/1‑49 (MQ=21)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCtt > 1:963267/1‑45 (MQ=25)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:573385/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:593731/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:586803/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:575786/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:779229/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:460233/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:439271/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:438602/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:368013/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:350977/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:596457/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:637927/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:663229/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:293582/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:898080/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:903605/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:9151/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:921796/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:926141/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:94656/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:997736/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:175129/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1221560/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1228734/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1282614/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1295227/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:129761/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1371505/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1436996/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1513468/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1531006/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1577352/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1610128/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:174076/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:348786/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1780707/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1918999/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1938195/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1959761/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:2000290/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:2092351/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:2129897/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:2213465/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:2311159/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:241721/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:281694/1‑49 (MQ=37)
tCAGCGCCTGTTCAATACTGTTCATCCGGCGATCGTAGATAGCTTTCGc > 1:1168454/1‑49 (MQ=37)
|
GTACATCTGTCGCACTGCGCGAAATATTATGCTGCTCAGCAATTTTCAGCGCCTGCTCAATGCTGTTCATCCGGCGGTCGTAGATGGCTTTCGC > minE/2428844‑2428937
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
