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 F1 I1 R1
|
765 |
39.6 |
1867486 |
94.4% |
1762906 |
108.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,873,755 |
C→T |
A80T (GCC→ACC) |
cysC ← |
adenosine 5'‑phosphosulfate kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,873,755 | 0 | C | T | 97.3%
| 112.8
/ NA
| 37 | A80T (GCC→ACC) | cysC | adenosine 5'‑phosphosulfate kinase |
| Reads supporting (aligned to +/- strand): ref base C (0/0); major base T (13/23); minor base A (1/0); total (14/23) |
| Fisher's exact test for biased strand distribution p-value = 3.78e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.98e-01 |
TCCTACGCGTTCGCGAACCATCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGCATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAGCGCCCCGGCGACCGTTGATTTACCGGACCCGGAGAGGCC > NC_000913/2873624‑2873890
|
tcCTACGCGTTCGCGAACCATCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTa < 2:670427/139‑1 (MQ=255)
cgTTCGCGAACCATCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCga < 1:267303/139‑1 (MQ=255)
cgTTCGCGAACCATCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCga < 2:642703/139‑1 (MQ=255)
tCGCGAACCATCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTTAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGAt < 2:533470/139‑1 (MQ=255)
tCGCGAACCATCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGAt > 2:251505/1‑139 (MQ=255)
gcgAACCATCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCg < 1:34248/139‑1 (MQ=255)
aCCATCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGc < 1:234855/139‑1 (MQ=255)
tCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATaa > 2:34454/1‑139 (MQ=255)
cTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTAACCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCAACGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAAt < 2:550708/139‑1 (MQ=255)
aTAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATc > 2:558886/1‑137 (MQ=255)
aTAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATc < 1:558886/137‑1 (MQ=255)
tAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAATACCGAGATCGCTGCAGAATCCGTGGCGAACATTGTCGCCATCcag < 2:536814/139‑1 (MQ=255)
gTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTTTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATcc < 2:659107/107‑1 (MQ=255)
gTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATcc > 1:659107/1‑107 (MQ=255)
tCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGt > 1:914255/1‑139 (MQ=255)
aGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTAc < 1:585198/139‑1 (MQ=255)
caccacCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCg < 2:26270/91‑1 (MQ=255)
caccacCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCg > 1:26270/1‑91 (MQ=255)
accaGACCGGCTTCAACCATCAAATTCGCGACTTCACCGACGCGTCGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGc < 2:898040/139‑1 (MQ=255)
ccGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGtt > 1:338098/1‑139 (MQ=255)
ccGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACAGACGCCGAGtt > 1:602984/1‑139 (MQ=255)
tCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTa < 2:658292/139‑1 (MQ=255)
cAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCcagcag > 1:599247/1‑105 (MQ=255)
cAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCcagcag < 2:599247/105‑1 (MQ=255)
tCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAg < 1:34454/139‑1 (MQ=255)
cgacgGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCg > 2:385857/1‑62 (MQ=255)
cgacgGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCg < 1:385857/62‑1 (MQ=255)
cgacgGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAGCGCCCCGGCGAc < 2:907329/134‑1 (MQ=255)
cgacgGATATTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAGCGCCCCGGCGAc > 1:907329/1‑134 (MQ=255)
atatTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAGCGCCCCGGCGACCGTTGATTTAc < 2:602984/139‑1 (MQ=255)
atatTCTCTTTACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAGCGCCCCGGCGACCGTTGATTTAc < 1:900826/139‑1 (MQ=255)
ttACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCcag < 1:31282/65‑1 (MQ=255)
ttACGATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCcag > 2:31282/1‑65 (MQ=255)
gATCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAGCGCCCCGGCGACCGTTGATTTACCGGACCCGGagag < 2:338098/139‑1 (MQ=255)
tCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAGCGCCCCGGCGACCGTTGATTTACCGGACCCGGAGAGGc > 1:699607/1‑139 (MQ=255)
tCGGTATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAGCGCCCCGGCGACCGTTGATTTACCGGACCCGGAGAGGc < 2:669130/139‑1 (MQ=255)
cGGAATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTACTTCAGCGCCCCGGCGACCGTTGATTTACCGGACCCGGAGAGGcc > 2:599355/1‑139 (MQ=255)
|
TCCTACGCGTTCGCGAACCATCTGGCGTTCGGCGCGGTGTGGCGAGATAAATGCGGTCAGCACCACCAGTCCGGCTTCAACCATCAAATTCGCCACTTCACCGACGCGACGGATATTCTCTTTACGATCGGCATCGCTAAAACCGAGATCGCTGCATAATCCGTGGCGAACATTGTCGCCATCCAGCAGATACGTACTGACGCCGAGTTTATGTAACGCCTCCTCCAGCGCCCCGGCGACCGTTGATTTACCGGACCCGGAGAGGCC > NC_000913/2873624‑2873890
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
