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 |
|
A41 F1 I1 R1
|
21 |
57.1 |
3643130 |
97.0% |
3533836 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
1,738,310 |
C→T |
G250D (GGC→GAC) |
sufD ← |
component of SufBCD complex |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 1,738,310 | 0 | C | T | 97.6%
| 153.2
/ ‑3.5
| 41 | G250D (GGC→GAC) | sufD | component of SufBCD complex |
| Reads supporting (aligned to +/- strand): ref base C (1/0); new base T (19/21); total (20/21) |
| Fisher's exact test for biased strand distribution p-value = 4.88e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.42e-01 |
CGCCAGGCTATTGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGCCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATCGTTATGGGCAAAGTGG > REL606/1738237‑1738381
|
cGCCCGGCTATTGGTCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCa > 2:600633/1‑76 (MQ=255)
cAGGCTATTGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCAccc > 1:966918/1‑76 (MQ=255)
aGGCTATTGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCca < 1:1365677/76‑1 (MQ=255)
aGGCTATTGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCca > 2:1074401/1‑76 (MQ=255)
gCTATTGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCcagc < 1:1575231/76‑1 (MQ=255)
tATTGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCcagcag > 1:208221/1‑76 (MQ=255)
aTTGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAgg < 2:1188047/76‑1 (MQ=255)
ttGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGa < 2:1064353/76‑1 (MQ=255)
tGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGaa < 1:1687000/76‑1 (MQ=255)
gATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGaaa > 2:1693394/1‑76 (MQ=255)
gATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGaaa > 2:1300765/1‑76 (MQ=255)
gATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGaaa < 2:197728/76‑1 (MQ=255)
tCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACt < 1:1552815/76‑1 (MQ=255)
cGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGCCACCCAGCAGGAAACTATGGCTa > 2:602553/1‑76 (MQ=255)
gTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTaa > 2:1385470/1‑76 (MQ=255)
gCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAAt < 2:1029815/76‑1 (MQ=255)
cTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATg > 1:1560184/1‑76 (MQ=255)
ttCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTg < 1:721004/76‑1 (MQ=255)
ttCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTg > 2:685299/1‑76 (MQ=255)
tCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTgg < 2:1044733/76‑1 (MQ=255)
tCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTgg < 2:873342/76‑1 (MQ=255)
tCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTgg < 2:43247/76‑1 (MQ=255)
cGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGAGGGGGc > 2:441537/1‑76 (MQ=255)
cATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATc < 2:927075/76‑1 (MQ=255)
aTTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCg < 2:1729592/76‑1 (MQ=255)
tGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTc > 1:456117/1‑76 (MQ=255)
tGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTc > 1:1656342/1‑76 (MQ=255)
gAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTca < 1:358222/76‑1 (MQ=255)
aGTTGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTcag < 2:209202/76‑1 (MQ=255)
tGCGTACTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTcagcca < 1:348855/76‑1 (MQ=255)
cTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGcaaca > 1:1385251/1‑76 (MQ=255)
cTGGTGTTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGcaaca > 2:645348/1‑76 (MQ=255)
gtgtTGTGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAAt < 2:1277890/76‑1 (MQ=255)
tgttgtGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATc > 1:1634446/1‑76 (MQ=255)
tgttgtGTCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATc < 2:671135/76‑1 (MQ=255)
gtgtCGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATCGTTa < 2:1213681/76‑1 (MQ=255)
cGTAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATCGTTATggg > 2:179767/1‑76 (MQ=255)
tAACACTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATCGTTATGGGCa > 2:455506/1‑76 (MQ=255)
cacTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATCGTCATGGACAAAg > 2:917937/1‑76 (MQ=255)
acTGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATCGTTATGGGCAAAgt > 2:569072/1‑76 (MQ=255)
tGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATCGTTATGGGCAAAgtgg < 2:412137/76‑1 (MQ=255)
tGCGTCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATCGTTATGGGCAAAgtgg < 2:412124/76‑1 (MQ=255)
|
CGCCAGGCTATTGATCCGCAGCGTGCTGTTTTCGCCATTGAGTTGCGTACTGGTGTTGTGTCGTAACACTGCGCCACCCAGCAGGAAACTATGGCTAAATGCGGTGGCATCGTCAGCCAGCAACAAATCGTTATGGGCAAAGTGG > REL606/1738237‑1738381
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ 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
