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 |
|
A1 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,938,519 |
A→G |
70.4% |
I166V (ATC→GTC) |
fucR → |
DNA‑binding transcriptional activator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,938,519 | 0 | A | G | 70.4%
| 80.4
/ 41.4
| 54 | I166V (ATC→GTC) | fucR | DNA‑binding transcriptional activator |
| Reads supporting (aligned to +/- strand): ref base A (13/3); new base G (18/20); total (31/23) |
| Fisher's exact test for biased strand distribution p-value = 3.40e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.85e-01 |
GCACACTTGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTGGGACTCC > W3110S.gb/2938451‑2938578
|
gcACACTTGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTc < 1:3187052/71‑1 (MQ=255)
cacaCTTGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCg < 1:695226/71‑1 (MQ=255)
cacTTGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGAt > 1:1284888/1‑71 (MQ=255)
gcgcAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGttt < 1:1608387/70‑1 (MQ=255)
gcAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTAtt < 1:1144367/71‑1 (MQ=255)
gcAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTAtt < 1:1439698/71‑1 (MQ=255)
gcAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTAtt < 1:1315228/71‑1 (MQ=255)
tatGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTc > 1:1674791/1‑71 (MQ=255)
atGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCt > 1:2769876/1‑71 (MQ=255)
cTGTTACGGCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTtgtg < 1:842903/71‑1 (MQ=255)
ttACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTtgtg < 1:766160/68‑1 (MQ=255)
ttACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTtgtg < 1:2395520/68‑1 (MQ=255)
ttACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGa < 1:122633/69‑1 (MQ=255)
tACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATc > 1:3513302/1‑49 (MQ=255)
tACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATc > 1:1133335/1‑49 (MQ=255)
tACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATc > 1:2141472/1‑49 (MQ=255)
tACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATc > 1:1842498/1‑49 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGAt > 1:2315874/1‑47 (MQ=255)
aCGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGAt > 1:2711303/1‑47 (MQ=255)
tCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATc < 1:1239033/71‑1 (MQ=255)
tCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATc < 1:3040324/71‑1 (MQ=255)
tCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATc < 1:2685311/71‑1 (MQ=255)
aaTCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGaa > 1:2003488/1‑63 (MQ=255)
aaTCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGaa > 1:1612104/1‑63 (MQ=255)
aaTCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTAGTGaa > 1:3666674/1‑63 (MQ=255)
ccTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGaa > 1:1902696/1‑59 (MQ=255)
ccTCGCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGaa > 1:2808671/1‑59 (MQ=255)
ccTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATag > 1:3567514/1‑70 (MQ=255)
ccTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATag > 1:282391/1‑70 (MQ=255)
cTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATa > 1:698071/1‑68 (MQ=255)
cTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATa > 1:3417023/1‑68 (MQ=255)
cTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATa > 1:2345708/1‑68 (MQ=255)
cTCGCTGATTTCCCAACTTAAATCGCTCGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATa > 1:2738465/1‑68 (MQ=255)
gCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGAt > 1:770969/1‑60 (MQ=255)
gCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGAt > 1:2264802/1‑60 (MQ=255)
gCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGAt > 1:1346331/1‑60 (MQ=255)
gCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGAt > 1:1784434/1‑60 (MQ=255)
gCTGATTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGCGAt > 1:1115801/1‑60 (MQ=255)
aTTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAgcggcg < 1:3575806/70‑1 (MQ=255)
aTTTCCCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAgcggcg < 1:57621/70‑1 (MQ=255)
aTTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGgcgc < 1:1280946/71‑1 (MQ=255)
ttCGCAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCa < 1:3306333/70‑1 (MQ=255)
tCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCAc < 1:3350229/70‑1 (MQ=255)
tCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCAc < 1:21829/70‑1 (MQ=255)
cccAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACtg > 1:714267/1‑71 (MQ=255)
ccAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACtgt < 1:833323/71‑1 (MQ=255)
ccAACTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACtgt < 1:3051751/71‑1 (MQ=255)
aaCTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTgg > 1:1785328/1‑71 (MQ=255)
aaCTTAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTgg > 1:1714568/1‑71 (MQ=255)
tAAATCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATa > 1:1524719/1‑50 (MQ=255)
tAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGaa > 1:1190856/1‑40 (MQ=255)
tAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGaa > 1:859906/1‑40 (MQ=255)
aaaTCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTGGGACt < 1:723540/70‑1 (MQ=255)
aaTCGCTGGAAGTCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTGGGACTcc < 1:1864026/71‑1 (MQ=255)
|
GCACACTTGAGCGCAAATATGGCTGTTACGTCAATCCCTCGCTGATTTCCCAACTTAAATCGCTGGAAATCGATCTGTTTATTTTTTCTTGTGAAGGGATCGATAGCAGCGGCGCACTGTGGGACTCC > W3110S.gb/2938451‑2938578
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
