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 |
|
A5 F28 I2 R2
|
154 |
32.4 |
3140800 |
76.4% |
2399571 |
54.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,976,768 |
(A)5→6 |
coding (271/1965 nt) |
cheA ← |
fused chemotactic sensory histidine kinase (soluble) in two‑component regulatory system with CheB and CheY |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,976,763 | 1 | . | A | 83.3%
| 10.4
/ ‑2.0
| 6 | coding (276/1965 nt) | cheA | fused chemotactic sensory histidine kinase (soluble) in two‑component regulatory system with CheB and CheY |
| Reads supporting (aligned to +/- strand): ref base . (0/1); new base A (0/5); total (0/6) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTGCGACTGTTTATAAGCGTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGC > W3110S.gb/1976711‑1976823
|
ctTGCGACTGTTTATAAGCGTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑AAAAACAGa < 1:2224326/62‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:325808/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2623746/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2646669/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2647344/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2687969/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2715884/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2780643/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2928005/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2964694/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:308896/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:1406555/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:332089/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:42273/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:4308/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:568377/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:736861/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:761919/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:943599/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:972242/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:979528/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2371603/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:1495211/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:223573/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:222053/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:1930893/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:1904842/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:1684818/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:1625990/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:1797627/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:1771279/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:1730987/39‑1 (MQ=255)
gTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:2605495/39‑1 (MQ=255)
tCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑aaaaa < 1:771138/38‑1 (MQ=255)
tGTTCTTGCATGATGTCCTTCGTTTCCAAAAAACAGATTGATAATGTc < 1:944736/48‑1 (MQ=255)
tGTTCTTGCATGATGTCCTTCGTTTCCAAAAAACAGATTGATAATGTc < 1:869141/48‑1 (MQ=255)
tGTTCTTGCATGATGTCCTTCGTTTCCAAAAAACAGATTGATAATGTc < 1:2066161/48‑1 (MQ=255)
tGTTCTTGCATGATGTCCTTCGTTTCCAAAAAACAGATTGATAATGTc < 1:1167109/48‑1 (MQ=255)
gTTCTTGCATGATGTCCTTCGTTTCCAAAAAACAGATTGATAATGTc < 1:164966/47‑1 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:1726072/1‑62 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:900680/1‑62 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:958400/1‑62 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:77016/1‑62 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:623572/1‑62 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:584981/1‑62 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:1871351/1‑62 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:189902/1‑62 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:2657166/1‑62 (MQ=255)
cc‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGc > 1:2495556/1‑62 (MQ=255)
|
CTTGCGACTGTTTATAAGCGTCGAGCTGTTCTTGCATGATGTCCTTCGTTTCC‑AAAAACAGATTGATAATGTCGGTGTTGAGTTGCATCTCACCTCGTCTGGCTTCATCGAGC > W3110S.gb/1976711‑1976823
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
