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 |
|
A4 F195 I0 R2
|
483 |
52.1 |
1908604 |
98.1% |
1872340 |
138.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,516,507 |
T→C |
6.9% |
G310G (GGT→GGC) |
patD → |
gamma‑aminobutyraldehyde dehydrogenase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,516,507 | 0 | T | C | 6.9%
| 188.2
/ 2.7
| 58 | G310G (GGT→GGC) | patD | gamma‑aminobutyraldehyde dehydrogenase |
| Reads supporting (aligned to +/- strand): ref base T (28/26); new base C (2/2); total (30/28) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.97e-01 |
TTGAAGCAGTGGTCGAAGGTGTACGTACATTTGGCTATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGAAAAGCGCAAGGGTAATGGCTATT > NC_000913/1516359‑1516652
|
ttGAAGCAGTGGTCGAAGGTGTACGTACATTTGGCTATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGt < 1:152873/149‑1 (MQ=255)
gTCGAAGGTGTACGTACATTTGGCTATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGa > 3:80557/1‑149 (MQ=255)
gTCGAAGGTGTACGTACATTTGGCTATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGa > 1:398760/1‑149 (MQ=255)
tCGAAGGTGTACGTACATTTGGCTATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGAc < 4:40720/149‑1 (MQ=255)
gAAGGTGTACGTACATTTGGCTATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGa > 3:69258/1‑149 (MQ=255)
aTTTGGCTATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTg < 1:296844/149‑1 (MQ=255)
tATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCttt > 2:285007/1‑149 (MQ=255)
tATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCttt > 2:268465/1‑149 (MQ=255)
ttACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTaa > 3:339914/1‑149 (MQ=255)
ttACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTaa < 2:45654/149‑1 (MQ=255)
tGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGc < 2:196824/149‑1 (MQ=255)
ggACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGCGCACCAGAtt < 4:12065/112‑2 (MQ=255)
ggACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGCGCACCAGAtt > 3:12065/1‑111 (MQ=255)
gACAGGATTGTGCTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGgcg > 1:251074/1‑149 (MQ=255)
gACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAGCGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGgcg > 3:345584/1‑149 (MQ=255)
gACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGgcg > 4:128285/1‑149 (MQ=255)
aGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGa < 2:26161/112‑1 (MQ=255)
aGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGa > 1:26161/1‑112 (MQ=255)
gTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGGGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGaa < 3:159369/149‑1 (MQ=255)
gTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGaa < 2:430164/149‑1 (MQ=255)
tACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAAc < 4:268043/149‑1 (MQ=255)
tACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAAc > 4:125154/1‑149 (MQ=255)
tGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAAcgcg > 3:189370/1‑149 (MQ=255)
ggCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCg < 1:261434/149‑1 (MQ=255)
ttGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCa > 2:31655/1‑149 (MQ=255)
aTCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGt > 3:173002/1‑149 (MQ=255)
aTCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGt < 4:80557/149‑1 (MQ=255)
gcgcAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTagaaga < 3:125154/149‑1 (MQ=255)
aaaaaGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGGAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCg > 3:406511/1‑149 (MQ=255)
aaaaGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGGAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGa < 4:406511/149‑1 (MQ=255)
aaaGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGaa < 1:268465/149‑1 (MQ=255)
aaGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGaaa < 4:173002/149‑1 (MQ=255)
aaGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGaaa < 1:268415/149‑1 (MQ=255)
aGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGa > 3:27429/1‑84 (MQ=255)
aGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGa < 4:27429/84‑1 (MQ=255)
aTTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGAc > 2:271893/1‑149 (MQ=255)
tttACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACa > 2:246234/1‑149 (MQ=255)
tACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCa < 3:170109/126‑1 (MQ=255)
tACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAgg < 1:285007/149‑1 (MQ=255)
tACGATACGCTGGAGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCa > 4:170109/1‑126 (MQ=255)
gCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCa > 3:417212/1‑149 (MQ=255)
tggtggAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCaaa < 2:251074/149‑1 (MQ=255)
gtggAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGt < 4:339914/149‑1 (MQ=255)
aaaaaCTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATc > 3:205427/1‑149 (MQ=255)
aaaaCTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCa > 3:229470/1‑149 (MQ=255)
gctgcGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGa < 1:31655/149‑1 (MQ=255)
tgcGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGaaa > 3:317638/1‑149 (MQ=255)
aaCGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTagaaga > 4:99349/1‑96 (MQ=255)
aaCGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTagaaga < 3:99349/96‑1 (MQ=255)
aCGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGAAAAGCGCAAggg > 2:467545/1‑149 (MQ=255)
aCGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGAAAAGCGCAAggg < 1:246234/149‑1 (MQ=255)
gTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGaaaa > 2:188765/1‑138 (MQ=255)
gTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGaaaa < 1:188765/138‑1 (MQ=255)
tcgtcaTCTGGCGCACCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACTTCAAAGTGa < 4:50365/116‑1 (MQ=255)
tcgtcaTCTGGCGCACCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGa > 3:50365/6‑121 (MQ=255)
aaaaTCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGAAAAGCGCAAGGGTAATg < 2:33286/149‑1 (MQ=255)
tCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCa < 3:351038/78‑1 (MQ=255)
tCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCa > 4:351038/1‑78 (MQ=255)
tGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGAAAAGCGCAAGGGTAATGGCTAtt > 3:75302/1‑149 (MQ=255)
|
TTGAAGCAGTGGTCGAAGGTGTACGTACATTTGGCTATTACAATGCTGGACAGGATTGTACTGCGGCTTGTCGGATCTACGCGCAAAAAGGCATTTACGATACGCTGGTGGAAAAACTGGGTGCTGCGGTGGCAACGTTAAAATCTGGTGCGCCAGATGACGAGTCTACGGAGCTTGGACCTTTAAGCTCGCTGGCGCATCTCGAACGCGTCGGCAAGGCAGTAGAAGAGGCGAAAGCGACAGGGCACATCAAAGTGATCACTGGCGGTGAAAAGCGCAAGGGTAATGGCTATT > NC_000913/1516359‑1516652
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
