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 |
|
A2 F50 I1 R1
|
170 |
39.5 |
1266514 |
99.2% |
1256381 |
150.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,954,771 |
A→G |
V746A (GTG→GCG) |
torZ ← |
trimethylamine N‑oxide reductase system III, catalytic subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,954,771 | 0 | A | G | 96.2%
| 82.6
/ ‑3.3
| 26 | V746A (GTG→GCG) | torZ | trimethylamine N‑oxide reductase system III, catalytic subunit |
| Reads supporting (aligned to +/- strand): ref base A (0/1); new base G (15/10); total (15/11) |
| Fisher's exact test for biased strand distribution p-value = 4.23e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.60e-01 |
ATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCACGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCATCTTCGGTGTGAATAGTGATTGGTTCACG > NC_000913/1954623‑1954913
|
aTTGCCCGTATATTTTTCGATATCCCCCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGcgcg < 2:264387/151‑1 (MQ=255)
ttGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGcgcg < 2:287339/150‑1 (MQ=255)
tataTTTTTCGATATACACCAACGCTGAGTTCCCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGTTATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCa < 2:150400/150‑1 (MQ=255)
tataCACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGa < 2:171603/150‑1 (MQ=255)
acacCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATccc > 1:582271/1‑151 (MQ=255)
cacCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCg > 2:622384/1‑151 (MQ=255)
aaCGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCgtc > 2:16042/1‑149 (MQ=255)
aaCGCTGAGTCACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCgtc > 2:88153/1‑149 (MQ=255)
cacaGTCATTGGCCAGCTGCGAGCGGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTg < 2:349464/150‑1 (MQ=255)
gCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGt < 2:356261/149‑1 (MQ=255)
ccgccgTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCAc < 2:10503/151‑1 (MQ=255)
ccgTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCAcc > 1:306803/1‑149 (MQ=255)
aaCACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGc < 1:551756/151‑1 (MQ=255)
gCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCa > 2:9504/1‑150 (MQ=255)
cACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAAt > 1:118851/1‑151 (MQ=255)
gCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATAcc > 1:292926/1‑150 (MQ=255)
cGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCaa > 2:318673/1‑150 (MQ=255)
ttttACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGc < 2:582256/150‑1 (MQ=255)
ttttACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGc < 2:404776/150‑1 (MQ=255)
cacaAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTgc > 1:411114/1‑149 (MQ=255)
aGCCATTTTCCAGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCAt > 1:233845/1‑150 (MQ=255)
gCCATTTTCCAGATCTGGCCATGCACCTTCATGCACGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCATCt < 1:433955/151‑1 (MQ=255)
aGATCTGGCCATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCATCTTCGGTGTGa > 2:51900/1‑150 (MQ=255)
ccATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCATCTTCGGTGTGAATAGTGAtt > 2:244756/1‑151 (MQ=255)
cATGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCATCTTCGGTGTGAATAGTGATTg < 1:622402/151‑1 (MQ=255)
tGCACCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCATCTTCGGTGTGAATAGTGATTGGt > 1:368724/1‑151 (MQ=255)
aCCTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCATCTTCGGTGTGAATAGTGATTGGTTCa < 2:549736/151‑1 (MQ=255)
cTTCATGCGCGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCATCTTCGGTGTGAATAGTGATTGGTTCACg > 2:291095/1‑151 (MQ=255)
|
ATTGCCCGTATATTTTTCGATATACACCAACGCTGAGTTACCGGCACAGGCATTTGCCAGCTGCGAGCTGGGGATATCCGCCGTTAACACGTTCGCACTGCCGTTTTTACACAAGCCATTTTCCAGATCTGGCCATGCACCTTCATGCACGCATACCACGCCTTTTTTGATCCCGTCAGTCACCACCGCGCCTGTCAAAATCTGACCACGTTTGTTCCAGACACGCACCAGATCGCCATTCGCAATACCAAAGCGTGCAGCATCTTCGGTGTGAATAGTGATTGGTTCACG > NC_000913/1954623‑1954913
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
