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 |
891,052 |
A→G |
42.3% |
A179A (GCT→GCC) |
sapF ← |
predicted antimicrobial peptide transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 891,052 | 0 | A | G | 42.3%
| 24.6
/ 64.3
| 85 | A179A (GCT→GCC) | sapF | predicted antimicrobial peptide transporter subunit |
| Reads supporting (aligned to +/- strand): ref base A (37/12); new base G (16/20); total (53/32) |
| Fisher's exact test for biased strand distribution p-value = 6.13e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01 |
TTTCCTGTAATTCCAGCATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCA > minE/890994‑891113
|
tttCCTGTAATTCCAGCATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCtt > 1:3081656/1‑69 (MQ=255)
ccAGCATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCaata > 1:2577758/1‑68 (MQ=255)
ccAGCATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCaata > 1:2346031/1‑68 (MQ=255)
ccAGCATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCaata > 1:334942/1‑68 (MQ=255)
ccAGCATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCaata > 1:3348669/1‑68 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:98440/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:3397396/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:3399435/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:343277/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:2230817/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:386253/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:2053099/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:663614/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:701543/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:706193/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:1625565/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:1549573/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:749208/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:1231002/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:3005637/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:30227/69‑1 (MQ=255)
cATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:908921/69‑1 (MQ=255)
aTCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:2193952/68‑1 (MQ=255)
aTCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:978086/68‑1 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCaa > 1:956579/1‑68 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCaa > 1:977799/1‑68 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:2140289/1‑69 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:3394177/1‑69 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:1202019/1‑69 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:1521534/1‑69 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:237363/1‑69 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:671984/1‑69 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:1609214/1‑69 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:218167/1‑69 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:314209/1‑69 (MQ=255)
aaCTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAat > 1:618889/1‑69 (MQ=255)
cTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCaat < 1:2402745/48‑1 (MQ=255)
gCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCa > 1:2594605/1‑69 (MQ=255)
cGACATATCCAGTGAGGCGAGGGCTTCATCGGCAATAATGAc < 1:2395862/42‑1 (MQ=255)
gACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc > 1:253653/1‑68 (MQ=255)
gACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgc > 1:2942419/1‑66 (MQ=255)
gACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgc > 1:892482/1‑66 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACtttt > 1:2241929/1‑40 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACt > 1:885367/1‑37 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCTCAATATCAgcgcgc > 1:558388/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:677883/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:933083/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:947880/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:2850421/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:2323520/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:1755893/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:1702485/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:1504478/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:2155296/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:2532314/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:1419672/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:2870782/1‑59 (MQ=255)
atCCAGTGAGGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgc > 1:2893934/1‑59 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc < 1:466663/62‑1 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc < 1:1160402/62‑1 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc < 1:1771264/62‑1 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc < 1:1227202/62‑1 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc < 1:1865331/62‑1 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc < 1:525488/62‑1 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc < 1:2409753/62‑1 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc < 1:1490556/62‑1 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc < 1:125478/62‑1 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcg > 1:1238085/1‑61 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccagacc > 1:2087009/1‑68 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccaga > 1:1294348/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccaga > 1:847691/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccaga > 1:727475/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccaga > 1:1997120/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccaga > 1:2899555/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccaga > 1:2507511/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccaga > 1:3291801/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccaga > 1:3021934/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccaga > 1:3013749/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGcca > 1:652924/1‑64 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGAGCGCGccaga > 1:1231965/1‑66 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCG‑AATATCAGCGCGCGCGccagaccca > 1:1122534/1‑69 (MQ=255)
tCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGCGCGCAATATCAGCGCGCGCGccaga > 1:385011/1‑66 (MQ=255)
tCCAGTCAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAgcgcgcgcgc > 1:2683733/1‑62 (MQ=255)
cAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccagaccca < 1:2890338/68‑1 (MQ=255)
aGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGccagaccca < 1:1300421/67‑1 (MQ=255)
taGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATc < 1:1802110/43‑1 (MQ=255)
|
TTTCCTGTAATTCCAGCATCAGATTAATCAACTGCGAACGCATCGACATATCCAGTGAAGCGAGGGCTTCATCGGCAATAATGACTTTTGGGCGCAATATCAGCGCGCGCGCCAGACCCA > minE/890994‑891113
|
| 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
