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 F21 I0 R2
|
44 |
10.9 |
588504 |
78.3% |
460798 |
57.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,231,014 |
C→T |
24.3% |
G581D (GGT→GAT) |
ptrB ← |
protease II |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,231,014 | 0 | C | T | 24.3%
| 65.4
/ 19.8
| 37 | G581D (GGT→GAT) | ptrB | protease II |
| Reads supporting (aligned to +/- strand): ref base C (8/20); new base T (6/3); total (14/23) |
| Fisher's exact test for biased strand distribution p-value = 5.69e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCGTTGTTA > minE/1230964‑1231071
|
aCGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:451443/62‑1 (MQ=255)
aCGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:186658/62‑1 (MQ=255)
aCGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:187325/62‑1 (MQ=255)
aCGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:560403/62‑1 (MQ=255)
aCGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:575478/62‑1 (MQ=255)
cGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCaa < 1:486849/62‑1 (MQ=255)
cGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCaa < 1:554433/62‑1 (MQ=255)
cGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCaa < 1:50003/62‑1 (MQ=255)
cGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:344765/61‑1 (MQ=255)
gCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACt > 1:152831/1‑62 (MQ=255)
gCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACt > 1:77089/1‑62 (MQ=255)
gCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACt > 1:247137/1‑62 (MQ=255)
aTGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAag > 1:226769/1‑62 (MQ=255)
aTGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAag > 1:504102/1‑62 (MQ=255)
aTGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAag > 1:570019/1‑62 (MQ=255)
aTGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAag > 1:173105/1‑62 (MQ=255)
aTGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAag > 1:454451/1‑62 (MQ=255)
gTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAaga < 1:135233/61‑1 (MQ=255)
gTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAaga < 1:147809/61‑1 (MQ=255)
ttcTCGTATTATTGCGGATCCTGCGGGTTACCCCACTCTTCa < 1:168823/40‑1 (MQ=39)
ccTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCaa < 1:315805/57‑1 (MQ=255)
ccTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCaa < 1:462135/57‑1 (MQ=255)
cTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCg < 1:88699/62‑1 (MQ=255)
gCGGGTTATCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCgtt < 1:398126/62‑1 (MQ=255)
gCGGGTTATCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCgtt < 1:565884/62‑1 (MQ=255)
gCGGGTTATCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCgtt < 1:102934/62‑1 (MQ=255)
gTTATCCCTCTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCgttgtt > 1:242225/1‑61 (MQ=255)
gTTATCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCgttgtt > 1:515479/1‑61 (MQ=255)
gTTATCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCgttgtt > 1:362602/1‑61 (MQ=255)
gTTATCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCgttgtt > 1:345353/1‑61 (MQ=255)
gTTATCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCgttgtt > 1:579123/1‑61 (MQ=255)
gTTATCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCgttgtt > 1:201226/1‑61 (MQ=255)
gTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCGTCGTTGTTa < 1:301677/62‑1 (MQ=255)
gTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCGTTGTTa < 1:440738/62‑1 (MQ=255)
gTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCGTTGTTa < 1:426667/62‑1 (MQ=255)
gTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCGTTGTTa < 1:506969/62‑1 (MQ=255)
gTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCGTTGTTa < 1:68590/62‑1 (MQ=255)
|
ACGGGCTGTAGCTTTTCATGTACTCGTAATATTGCGGATCCTGCGGGTTACCCCACTCTTCAAACTCACCAGTGGTAAGAGGAATTGATTCATCAAGCATCGTTGTTA > minE/1230964‑1231071
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
