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 |
|
A8 F1 I1 R1
|
771 |
44.8 |
2153074 |
94.1% |
2026042 |
109.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,122,095 |
G→A |
P571S (CCG→TCG) |
glcB ← |
malate synthase G |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,122,095 | 0 | G | A | 92.3%
| 102.0
/ 0.5
| 39 | P571S (CCG→TCG) | glcB | malate synthase G |
| Reads supporting (aligned to +/- strand): ref base G (1/2); new base A (18/18); total (19/20) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.99e-01 |
CTGCTCCACCCAGCGCACCACGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGGTTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAGCGTAGCAGCGGTTGGTGACGGAACCCAGGCTGTGTTTGCCCCG > NC_000913/3121967‑3122222
|
cTGCTCCACCCAGCGCACCACGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCNTTTTCANNANCNGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCa > 1:921133/1‑139 (MQ=255)
gCTCCACCCAGCGCACCACGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTc > 2:427959/1‑130 (MQ=255)
gCTCCACCCAGCGCACCACGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTc < 1:427959/130‑1 (MQ=255)
tCCACCCAGCGCACCACGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCAt < 1:972053/139‑1 (MQ=255)
cAGCGCACCACGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGGTTCAAATTCAGCATTGAACt < 2:114431/139‑1 (MQ=255)
gcACCACGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGGCTCAAATTCAGCATTGAACTCGGt < 1:496096/139‑1 (MQ=255)
cacGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTgg > 1:314207/1‑139 (MQ=255)
acGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTggg < 1:556786/139‑1 (MQ=255)
ccccAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATg < 2:314207/139‑1 (MQ=255)
ccAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGtt < 2:290389/139‑1 (MQ=255)
ccTGCATGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTAc > 1:1067743/1‑139 (MQ=255)
ccTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTAc > 2:713039/1‑139 (MQ=255)
ctctTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGttggtttgg > 1:202999/1‑139 (MQ=255)
gttgGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGttggttt < 2:857626/132‑1 (MQ=255)
gttgGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGttggttt > 1:857626/1‑132 (MQ=255)
aTCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCa < 1:540442/139‑1 (MQ=255)
tGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACg < 2:529146/114‑1 (MQ=255)
tGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACg > 1:529146/1‑114 (MQ=255)
ccGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAg < 2:333965/139‑1 (MQ=255)
aCCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGGTTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAGCGt > 1:719918/1‑139 (MQ=255)
aCCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACg > 2:690039/1‑98 (MQ=255)
aCCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACg < 1:690039/98‑1 (MQ=255)
cAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAAc > 2:271438/1‑69 (MQ=255)
cAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAAc < 1:271438/69‑1 (MQ=255)
ttttCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACg < 2:637071/87‑1 (MQ=255)
ttttCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACg > 1:637071/1‑87 (MQ=255)
ttttCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAGCGTAGCAGCGGTTg < 1:124707/139‑1 (MQ=255)
aTAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGCTAGTGCAGCGCATGGAGCGTAGCAGCGGTTGGTGACGGAACCCAgg < 2:817852/139‑1 (MQ=255)
tAGTCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAGCGTAGCAGCGGTTGGTGACGGAACCCAGGc < 2:921133/139‑1 (MQ=255)
tCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGc > 2:210640/1‑69 (MQ=255)
tCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGc < 1:210640/69‑1 (MQ=255)
tCAGCAGATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAGCGTAGCAGCGGTTGGTGACGGAACCCAGGCtgt > 2:676215/1‑139 (MQ=255)
agcagATCGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAGCGTAGCAGCGGTTGGTGACGGAACCCAGGCTgtgt > 2:332944/1‑139 (MQ=255)
cGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGt < 2:108732/37‑1 (MQ=25)
cGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGt > 1:108732/1‑37 (MQ=255)
cGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTa > 2:1057590/1‑57 (MQ=255)
cGTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTa < 1:1057590/57‑1 (MQ=255)
gTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAGCGTAGCAGCGGTTGGTGACGGAACCCAGGCTGTGTTTGCCCCg > 1:595218/1‑139 (MQ=255)
gTCCAGCAGCGATTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAGCGTAGCAGCGGTTGGTGACGGAACCCAGGCTGTGTTTGCCCCg > 1:519529/1‑139 (MQ=255)
|
CTGCTCCACCCAGCGCACCACGTACCCCAGAATCCCCTGCACGTTGTTATCCAGCTCTTGTTGGATCTCTTGCGCCGACCAGTTAGCGTTTTCAGCAACCGGAATAGTCAGCAGATCGTCCAGCAGCGGTTCAAATTCAGCATTGAACTCGGTCTGGGCAATGTTGGCTTGTACGCTCTGTACGTTGGTTTGGTGGTAGTGCAGCGCATGGAGCGTAGCAGCGGTTGGTGACGGAACCCAGGCTGTGTTTGCCCCG > NC_000913/3121967‑3122222
|
| 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
