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 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
306,593 |
T→C |
44.7% |
N655S (AAC→AGC) |
yagX ← |
predicted aromatic compound dioxygenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 306,593 | 0 | T | C | 44.7%
| 6.6
/ 49.2
| 38 | N655S (AAC→AGC) | yagX | predicted aromatic compound dioxygenase |
| Reads supporting (aligned to +/- strand): ref base T (13/8); new base C (4/13); total (17/21) |
| Fisher's exact test for biased strand distribution p-value = 2.47e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACCGTCGTCCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCGCGCTATT > W3110S.gb/306523‑306663
|
aCCGTCGTCCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGt > 1:1508628/1‑71 (MQ=255)
gtcCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTAc < 1:2846106/71‑1 (MQ=255)
gtcCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTAc < 1:2978666/71‑1 (MQ=255)
gtcCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTAc < 1:1316627/71‑1 (MQ=255)
gtcCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTAc < 1:3661824/71‑1 (MQ=255)
ccAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTa > 1:3566625/1‑65 (MQ=255)
gtgtTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGAc < 1:4069697/71‑1 (MQ=255)
gtTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGc > 1:1892798/1‑71 (MQ=255)
ttGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt < 1:1036363/52‑1 (MQ=255)
ttGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtt < 1:3836604/50‑1 (MQ=255)
gAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGc > 1:2426114/1‑71 (MQ=255)
gAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGc > 1:3973315/1‑71 (MQ=255)
gAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGc > 1:104612/1‑71 (MQ=255)
aaTATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGcc < 1:1436318/71‑1 (MQ=255)
tatCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt < 1:2479302/47‑1 (MQ=255)
ccAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGt > 1:687961/1‑71 (MQ=255)
gCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCa < 1:3234384/60‑1 (MQ=255)
gCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCa < 1:2939235/60‑1 (MQ=255)
cGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt > 1:1822193/1‑36 (MQ=255)
cGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt > 1:544627/1‑36 (MQ=255)
cGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt > 1:2079081/1‑36 (MQ=255)
cGTTGCCATCAGTCCGCCCGCTGGCAGCAATGtttt > 1:240409/1‑36 (MQ=255)
ttGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGtt > 1:3689678/1‑71 (MQ=255)
gCCATCAGTCCGCCCGCTGGCAGCAATGTTCTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTgg > 1:2657923/1‑71 (MQ=255)
ccATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTgg < 1:3874174/70‑1 (MQ=255)
ccATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGt < 1:2529328/71‑1 (MQ=255)
ccATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGt < 1:1168841/71‑1 (MQ=255)
ccATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGt < 1:3365970/71‑1 (MQ=255)
ccATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTgg < 1:935587/70‑1 (MQ=255)
ccATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTgg < 1:912041/70‑1 (MQ=255)
ccATCAGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTgg < 1:481100/70‑1 (MQ=255)
tCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTAtt > 1:2077784/1‑71 (MQ=255)
cAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTAtt > 1:3142095/1‑70 (MQ=255)
aGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGa > 1:1977493/1‑71 (MQ=255)
aGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGa > 1:1460433/1‑71 (MQ=255)
aGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGa > 1:1484242/1‑71 (MQ=255)
aGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGa > 1:1575462/1‑71 (MQ=255)
aGTCCGCCCGCTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGa < 1:26479/71‑1 (MQ=255)
cgcccgcTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACg > 1:1835795/1‑69 (MQ=255)
cgcccgcTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACg > 1:3621446/1‑69 (MQ=255)
cTGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTc < 1:3684632/71‑1 (MQ=255)
tGGCAGCAATGCTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACg < 1:1475376/62‑1 (MQ=255)
gcagcaATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTccgc > 1:3337509/1‑71 (MQ=255)
gcaATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGa < 1:3606134/55‑1 (MQ=255)
aaTGTTTTTACCCTGCCAGCCGACGCTGACATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCgcgc < 1:2301690/71‑1 (MQ=255)
tGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTc < 1:201068/38‑1 (MQ=255)
tttttACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTAtt < 1:3032673/47‑1 (MQ=255)
tttttACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCGCGCTAtt > 1:401811/1‑71 (MQ=255)
tttttACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCGCGCTAtt > 1:1147200/1‑71 (MQ=255)
|
ACCGTCGTCCTCCAGCCCGGTGTTGAATATCACCCCAGCGTTGCCATCAGTCCGCCCGCTGGCAGCAATGTTTTTACCCTGCCAGCCGACGCTGCCATTGGCGGTCAAGTTGGTATTGACGTAGCCGTCCGCCGCGCTATT > W3110S.gb/306523‑306663
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
