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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
915,579 |
C→T |
30.8% |
D43D (GAC→GAT) |
ycjF → |
conserved inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 915,579 | 0 | C | T | 30.8%
| 66.0
/ 31.4
| 71 | D43D (GAC→GAT) | ycjF | conserved inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base C (25/24); new base T (4/18); total (29/42) |
| Fisher's exact test for biased strand distribution p-value = 1.03e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTCAGGGCGCAGCAGACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTAATGGACGCAGCGTTACGTCCGAAACGCAGCC > minE/915517‑915646
|
ttCAGGGCGCAGCAGACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAgcg < 1:210617/69‑1 (MQ=255)
ttCAGGGCGCAGCAGACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAgcg < 1:1177808/69‑1 (MQ=255)
ttCAGGGCGCAGCAGACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAgcg < 1:1228726/69‑1 (MQ=255)
ttCAGGGCGCAGCAGACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAgcg < 1:3363662/69‑1 (MQ=255)
cgcAGCAGACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGga > 1:1659562/1‑67 (MQ=255)
cgcAGCAGACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGga > 1:188140/1‑67 (MQ=255)
cagcagACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGgaagaa < 1:3224182/69‑1 (MQ=255)
cagcagACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGgaagaa < 1:2381961/69‑1 (MQ=255)
cagcagACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGgaagaa < 1:169710/69‑1 (MQ=255)
cagcagACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGgaagaa < 1:2724656/69‑1 (MQ=255)
cagcagACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGgaagaa < 1:1556509/69‑1 (MQ=255)
cagcagACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGgaagaa < 1:422238/69‑1 (MQ=255)
cagcagACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGgaagaa < 1:467506/69‑1 (MQ=255)
gACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAgg > 1:3029474/1‑68 (MQ=255)
gACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAgg > 1:3009578/1‑68 (MQ=255)
gACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAgg > 1:2276362/1‑68 (MQ=255)
gACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAgg > 1:2592850/1‑68 (MQ=255)
gACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAgg > 1:2542177/1‑68 (MQ=255)
gACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAgg > 1:1960599/1‑68 (MQ=255)
gACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAgg > 1:2331430/1‑68 (MQ=255)
cTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGACACGCTCGACGAAGCGCAGGAAGAAGAGGGGCa > 1:3210374/1‑69 (MQ=255)
aCGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGt > 1:144512/1‑67 (MQ=255)
aCGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGt > 1:45633/1‑67 (MQ=255)
gAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGa < 1:3240454/68‑1 (MQ=255)
gAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGa < 1:1841183/68‑1 (MQ=255)
aaTCAGGCGCAAAATTTTGCCCCAGCCACGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCg > 1:3044757/1‑69 (MQ=255)
aaTCAGGCGCAAAATTTTGCCCCAGCCACGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCg > 1:3369714/1‑69 (MQ=255)
aaTCAGGCGCAAAATTTTGCCCCAGCCACGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCg > 1:472637/1‑69 (MQ=255)
aaTCAGGCGCAAAATTTTGCCCCAGCCACGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCg > 1:713080/1‑69 (MQ=255)
tCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGt < 1:2435398/69‑1 (MQ=255)
tCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGt < 1:2221946/69‑1 (MQ=255)
tCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGt < 1:977760/69‑1 (MQ=255)
tCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGt < 1:1597176/69‑1 (MQ=255)
tCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGt < 1:1125791/69‑1 (MQ=255)
cAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGaagaag < 1:1905728/49‑1 (MQ=255)
cAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGaagaag < 1:2495635/49‑1 (MQ=255)
cAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGaagaag < 1:2967937/49‑1 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAgg > 1:1111680/1‑42 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:1046424/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:37611/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:1444269/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:3105065/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:2980140/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:649640/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:2709471/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:260296/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:172796/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:945360/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTaa > 1:1790034/1‑69 (MQ=255)
aGGCGCAAAATTTTGCCC‑‑‑CCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTAATgg > 1:1662482/1‑69 (MQ=255)
gcgcAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCACGAAGAAGAGGGGCAAGTCGAAGCGGTAATg < 1:1793776/69‑1 (MQ=255)
ccACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTAATGGACGCAGCGTTACGTCCGa < 1:2567360/69‑1 (MQ=255)
ccACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTAATGGACGCAGCGTTACGTCCGa < 1:2441553/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGTTGATGGACGCAGCGTTACGTCCGAAAc < 1:815063/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:964576/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1328745/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1589825/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:3426919/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1480938/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1504681/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1507664/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1913508/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:2993510/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1684446/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:266895/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1758869/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1011695/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:2237889/69‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGT‑ATGGACGCAGCGTTACGTCCGAAAc < 1:1559644/68‑1 (MQ=255)
cGCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGATGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1516707/69‑1 (MQ=255)
gCTCGATGAAGCGCAGGAAGAAGAGGGGCAAGTTGAAGCGGTGATGGACGCAGCGTTACGTCCGAAAc < 1:1133543/68‑1 (MQ=255)
cgaAGCTCAGGAAGAAGAGGGGCAAGTCGAAGCGGTAATGGACGCAGCGTTACGTCCGAAACGCAGcc < 1:2770059/68‑1 (MQ=255)
cgaAGCGCATGAAGAAGAGGGGCAAGTCGAAGCGGTAATGGACGCAGCGGTACGTCCGAAACGCAGcc < 1:3217680/68‑1 (MQ=255)
cgaAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTAATGGACGCAGCGTTACGTCCGAAACGCAGcc < 1:676010/68‑1 (MQ=255)
|
TTCAGGGCGCAGCAGACCTTTGACGAAAATCAGGCGCAAAATTTTGCCCCGGCCACGCTCGACGAAGCGCAGGAAGAAGAGGGGCAAGTCGAAGCGGTAATGGACGCAGCGTTACGTCCGAAACGCAGCC > minE/915517‑915646
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
