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 |
1,447,784 |
G→A |
38.2% |
D64N (GAT→AAT) |
atoS → |
sensory histidine kinase in two‑component regulatory system with AtoC |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,447,784 | 0 | G | A | 38.2%
| 32.5
/ 36.5
| 60 | D64N (GAT→AAT) | atoS | sensory histidine kinase in two‑component regulatory system with AtoC |
| Reads supporting (aligned to +/- strand): ref base G (8/29); new base A (7/16); total (15/45) |
| Fisher's exact test for biased strand distribution p-value = 5.44e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.85e-01 |
CAGCAGTCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATCCGCGCATTAAATGCAGAACT > minE/1447716‑1447848
|
cagcagTCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCg > 1:3425345/1‑69 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTTGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:1399983/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:2055609/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:2551978/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:2779483/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:1806693/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:2478782/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:3351607/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:3354451/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:353731/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:551666/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:1238489/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:2388758/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:216429/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:756819/69‑1 (MQ=255)
tCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:889205/69‑1 (MQ=255)
cTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCGCTAGGCAATCGCt < 1:3314625/68‑1 (MQ=255)
aaaGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGAtctc < 1:2144073/66‑1 (MQ=255)
aaaGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGAtctc < 1:2104064/66‑1 (MQ=255)
aaaGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGAtctc < 1:2184144/66‑1 (MQ=255)
aaaGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGAtctc < 1:2710889/66‑1 (MQ=255)
aaaGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGAtctc < 1:1722125/66‑1 (MQ=255)
aaaGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGAtctc < 1:1182749/66‑1 (MQ=255)
aaaGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGAtctc < 1:673257/66‑1 (MQ=255)
aatcTTTCTGCCGTTGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGa < 1:650007/62‑1 (MQ=255)
aCTTTCTGCCGTCGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTAcc < 1:89210/69‑1 (MQ=255)
cAACCTGTTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:1147749/68‑1 (MQ=255)
cAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:2179066/68‑1 (MQ=255)
cAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:1003270/68‑1 (MQ=255)
cAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:226009/68‑1 (MQ=255)
cAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:360951/68‑1 (MQ=255)
cAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:3388715/68‑1 (MQ=255)
cAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:3199605/68‑1 (MQ=255)
cAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:2694463/68‑1 (MQ=255)
cAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:3130437/68‑1 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGAtctc < 1:2413016/39‑1 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTAc > 1:2197810/1‑42 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:781600/67‑1 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:160689/67‑1 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATc > 1:1019848/1‑69 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATc > 1:1224480/1‑69 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATc > 1:1935666/1‑69 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATc > 1:1709733/1‑69 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATc > 1:2416100/1‑69 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATc > 1:2142192/1‑69 (MQ=255)
aaCCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATc > 1:1313675/1‑69 (MQ=255)
cAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATCCGCGCATTaaa < 1:1262685/68‑1 (MQ=255)
cACTAGGCGGTCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATCCGCGCATTAAATGCAg < 1:2148414/69‑1 (MQ=255)
cACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATCCGCGCATTAAATGCAg < 1:1625605/69‑1 (MQ=255)
cACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATCCGCGCATTAAATGCAg < 1:369691/69‑1 (MQ=255)
cACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATCCGCGCATTAAATGCAg < 1:1821092/69‑1 (MQ=255)
cACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATCCGCGCATTAAATGCAg < 1:2051576/69‑1 (MQ=255)
cACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATCCGCGCATTAAATGCAg < 1:3079644/69‑1 (MQ=255)
tAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTa < 1:858987/48‑1 (MQ=255)
aGGCAATCGCTACGATCTCTACATCGACTTACCGCGTGAGGAGCGTATCCGCGCATTAAATGCAGAACt > 1:2201940/1‑69 (MQ=255)
aGGCAATCGCTACGATCTCTACATCGACTTACCGCGTGAGGAGCGTATCCGCGCATTAAATGCAGAACt > 1:2745736/1‑69 (MQ=255)
aGGCAATCGCTACGATCTCTACATCGACTTACCGCGTGAGGAGCGTATCCGCGCATTAAATGCAGAACt > 1:1030651/1‑69 (MQ=255)
aGGCAATCGCTACGATCTCTACATCGACTTACCGCGTGAGGAGCGTATCCGCGCATTAAATGCAGAACt > 1:386561/1‑69 (MQ=255)
aGGCAATCGCTACGATCTCTACATCGACTTACCGCGTGAGGAGCGTATCCGCGCATTAAATGCAGAACt > 1:3277908/1‑69 (MQ=255)
aGGCAATCGCTACGATCTCTACATCGACTTACCGCGTGAGGAGCGTATCCGCGCATTAAATGCAGAACt > 1:3076629/1‑69 (MQ=255)
aGGCAATCGCTACGATCTCTACATCGACTTACCGCGTGAGGAGCGTATCCGCGCATTAAATGCAGAACt > 1:1916203/1‑69 (MQ=255)
|
CAGCAGTCTTATCTGAAAAAGAGAAAAAACTTTCTGCCGTGGTCAACCTGCTTAATCAGGCACTAGGCGATCGCTATGATCTCTACATCGACTTACCACGTGAGGAGCGTATCCGCGCATTAAATGCAGAACT > minE/1447716‑1447848
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
