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 |
|
A14 F68 I0 R1
|
683 |
78.3 |
2772122 |
98.0% |
2716679 |
141.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
NC_000913 |
1,306,788 |
T→C |
12.2% |
intergenic (+20/+33) |
oppF → / ← yciU |
oligopeptide ABC transporter ATPase/UPF0263 family protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,306,788 | 0 | T | C | 12.2%
| 106.7
/ 7.9
| 41 | intergenic (+20/+33) | oppF/yciU | oligopeptide ABC transporter ATPase/UPF0263 family protein |
| Reads supporting (aligned to +/- strand): ref base T (17/19); new base C (3/2); total (20/21) |
| Fisher's exact test for biased strand distribution p-value = 6.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.11e-01 |
ACCCGCCTTCCGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGATTTCACCATCTTCACTGTCCGCCAGACCAATCACC > NC_000913/1306641‑1306932
|
aCCCGCCTTCCGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGtt < 2:687125/149‑1 (MQ=255)
aCCCGCCTTCCGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGtt < 2:385753/149‑1 (MQ=255)
aCCCGCCTTCCGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAACGGCTGACAGtt < 3:392701/149‑1 (MQ=255)
ccGCCTTCCGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGt < 4:291212/149‑1 (MQ=255)
ccGCCTTCCGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGt < 4:1933/149‑1 (MQ=255)
cGCCTTCTGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTc > 3:610877/1‑149 (MQ=255)
cGCCTTCCGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTc > 2:116431/1‑149 (MQ=255)
gCCTTCCGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCa < 2:75000/149‑1 (MQ=255)
gTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCtttt > 2:352110/1‑149 (MQ=255)
ttGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCttttt > 2:589950/1‑149 (MQ=255)
ttttCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGc > 3:44265/1‑149 (MQ=255)
tGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGattatt < 1:589950/149‑1 (MQ=255)
agTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAACTGTCAGCCCttat > 1:535368/1‑108 (MQ=255)
agTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAACTGTCAGCCCttat < 2:535368/110‑3 (MQ=255)
gTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATg < 3:322710/149‑1 (MQ=255)
gcCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCaa > 4:349092/1‑149 (MQ=255)
gcCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCaa > 4:501914/1‑149 (MQ=255)
ccAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACg < 4:182571/109‑1 (MQ=255)
ccAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACg > 3:182571/1‑109 (MQ=255)
cAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGa < 3:411855/118‑1 (MQ=255)
cAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGa > 4:411855/1‑118 (MQ=255)
aaaCACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGtt > 3:172504/1‑149 (MQ=255)
cacGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTtgt < 1:352110/149‑1 (MQ=255)
tCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCg < 3:149185/108‑1 (MQ=255)
tCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCg > 4:149185/1‑108 (MQ=255)
gTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCtttt > 3:196548/1‑149 (MQ=255)
tCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCttttt < 2:584269/126‑1 (MQ=255)
tCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCttttt > 1:584269/1‑126 (MQ=255)
tCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCa > 1:271086/1‑149 (MQ=255)
gTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTcgcg < 3:3479/127‑1 (MQ=255)
gTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTcgcg > 4:3479/1‑127 (MQ=255)
tttCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCaaaaa < 4:610877/149‑1 (MQ=255)
tCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACa < 3:501914/149‑1 (MQ=255)
ttGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATc < 2:271086/149‑1 (MQ=255)
tGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGa < 4:44265/149‑1 (MQ=255)
aaGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGAttt < 1:116431/149‑1 (MQ=255)
gATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGATTTCACCa < 1:533545/149‑1 (MQ=255)
cTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGATTTCACCATCTTCa < 3:349092/149‑1 (MQ=255)
aaaGGGCTGACAACTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATc > 1:139399/2‑118 (MQ=255)
aaaGGGCTGACAACTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATc < 2:139399/117‑1 (MQ=255)
aGGGCTGACAACTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGATTTCACCATCTTCACTGTCCGCCAGAcc > 4:643792/1‑149 (MQ=255)
ggCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGATTTCACCATCTTCACTGTCCGCCAGACCaa < 4:196548/149‑1 (MQ=255)
aCAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGATTTCACCATCTTCACTGTCCGCCAGACCAATcacc > 3:399460/1‑149 (MQ=255)
aCAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGATTTCACCATCTTCACTGTCCGCCAGACCAATcacc > 4:664832/1‑149 (MQ=255)
|
ACCCGCCTTCCGGTTGTGTTTTCCGTACCCGTTGCCCGATTGCCGGTCCAGAGTGCGCCAAAACACGTCCTGTTCTGGAGGGGAGTTTCAGACACTCCGTTTCTTGCCTGAAAGTCGATCCGCTTTAAAAACAATAAGGGCTGACAGTTGTCAGCCCTTTTTCACGCTAAAAGCGATTATTTATTCCCGCCAGATGATATGGCAAAGTTTGTGATCTTTTTCGCGGCATAACAGAATGCGGGCAAAAACATCGTTGATTTCACCATCTTCACTGTCCGCCAGACCAATCACC > NC_000913/1306641‑1306932
|
| 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
