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 |
|
A6 F1 I2 R1
|
67 |
27.9 |
1239648 |
95.3% |
1181384 |
112.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,173,808 |
T→A |
D530V (GAT→GTT) |
parE ← |
DNA topoisomerase IV, subunit B |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,173,808 | 0 | T | A | 83.3%
| 27.9
/ 0.2
| 12 | D530V (GAT→GTT) | parE | DNA topoisomerase IV, subunit B |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base A (5/5); total (6/6) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01 |
CAATTGCATCGGGTTCATTTCCCCCAGACCTTTAAAACGCTGGACGTTCGGCTTGCCTTTCTTGCGTTTTAATTGCTCAAGTACGCCCTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCTCTTTCCCGAGATCAATACGGTAGAGCGGTGGCAGTGCGACGTAAACGTGACCGTGTTTCACCAACGCGCGGAAATGTTTTACGAACAAAGCGCAGAGCAGCGTGGCAATGTGCAGACCATCAGAGTCCGCATCCGCGAGGAT > NC_000913/3173675‑3173938
|
cAATTGCATCGGGTTCATTTCCCCCAGACCTTTAAAACGCTGGACGTTCGGCTTGCCTTTCTTGCGTTTTAATTGCTCAAGTACGCCCTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCTCTTTCCCGAGATCAATa < 1:375624/139‑1 (MQ=255)
ttCATTTCCCCCAGACCTTTAAAACGCTGGACGTTCGGCTTGCCTTTCTTGCGTTTTAATTGCTCAAGTACGCCCTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCTCTTTCCCGAGAACAATACGGTAGAGCGGTg > 1:605944/1‑139 (MQ=255)
aaaCGCTGGACGTTCGGCTTGCCTTTCTTGCGTTTTAATTGCTCAAGTACGCCCTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCTCTTTCCCGAGAACAATACGGTAGAGCGGTGGCAGTGCGACGTAAACGTGAc < 2:249270/139‑1 (MQ=255)
aaTTGCTCAAGTACGCCCTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCTCTTTCCCGAGAACAATACGGTAGAGCGGTGGCAGTGCGACGTAAACGTGACCGTGTTTCACCAACGCGCGGAAATGTTTTACGAACa < 2:605944/139‑1 (MQ=255)
cTCAAGTACGCCCTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCTCTTTCCCGAGAACAATACGGTAGAGCGGTGGCAGTGCGACGTAAACGTGACCGTGTTTCACCAACGCGCGGAAATGTTTTACGAACAAAgcg < 1:175414/139‑1 (MQ=255)
cGCCCTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCTCTTTCCCGAGAACa > 2:507972/1‑53 (MQ=255)
cccTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCTCTTTCCCGAGAACAATACGGTAGAGCGGTGGCAGTGCGAc > 1:126965/1‑77 (MQ=255)
cccTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCGCTTTCCCGAGAACAATACGGTAGAGCGGTGGCAGTGCGAc < 2:126965/77‑1 (MQ=255)
cccTCTTTCTCTTCTTCCGCCAGCGCGTAATAAACCTCTTTCCCGAGAACAATACGGTAGAGCGGTGGCAGTGCGACGTAAACGTGAc > 1:321969/1‑88 (MQ=255)
cccTCTTTCTCTTCTTCCGCCAGCGCGTAATAAACCTCTTTCCCGAGAACAATACGGTAGAGCGGTGGCAGTGCGACGTAAACGTGAc < 2:321969/88‑1 (MQ=255)
cttcCGTCAGCGCGTAATAAACCTCTTTCCCGAGATCAATACGGTAGAGCGGTGGCAGTGCGACGTAAACGTGACCGTGTTTCACCAACGCGCGGAAATGTTTTACGAACAAAGCGCAGAGCAGCGTGGCAATGTGCAg > 1:479677/1‑139 (MQ=255)
tCCCGAGAACAATACGGTAGAGCGGTGGCAGTGCGACGTAAACGTGACCGTGTTTCACCAACGCGCGGAAATGTTTTACGAACAAAGCGCAGAGCAGCGTGGCAATGTGCAGACCATCAGAGTCCGCATCCGCGAGGAt > 2:410442/1‑139 (MQ=255)
|
CAATTGCATCGGGTTCATTTCCCCCAGACCTTTAAAACGCTGGACGTTCGGCTTGCCTTTCTTGCGTTTTAATTGCTCAAGTACGCCCTCTTTCTCTTCTTCCGTCAGCGCGTAATAAACCTCTTTCCCGAGATCAATACGGTAGAGCGGTGGCAGTGCGACGTAAACGTGACCGTGTTTCACCAACGCGCGGAAATGTTTTACGAACAAAGCGCAGAGCAGCGTGGCAATGTGCAGACCATCAGAGTCCGCATCCGCGAGGAT > NC_000913/3173675‑3173938
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
