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 |
2,645,878 |
C→A |
29.2% |
L49L (CTG→CTT) |
yhgN ← |
predicted antibiotic transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,645,878 | 0 | C | A | 29.2%
| 88.8
/ 35.4
| 65 | L49L (CTG→CTT) | yhgN | predicted antibiotic transporter |
| Reads supporting (aligned to +/- strand): ref base C (3/43); new base A (3/16); total (6/59) |
| Fisher's exact test for biased strand distribution p-value = 3.47e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.28e-01 |
CTAAGAAATGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTATGTTTCAGT > minE/2645828‑2645944
|
cTAAGAAATGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAAc < 1:2870715/69‑1 (MQ=255)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1803429/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:2255677/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:525392/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:2151246/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:2417073/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:521450/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1003002/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:867879/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:375713/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1763779/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1560081/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:369667/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:347122/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:3023577/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1117783/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:3059658/51‑1 (MQ=38)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCTCAc < 1:1588184/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc > 1:1053818/1‑69 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2722648/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2536556/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2329313/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc > 1:231812/1‑69 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:3398187/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2121346/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2125378/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:973679/69‑1 (MQ=255)
ggAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:2058965/68‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:3323271/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:3101180/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:3406497/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:1214504/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:2964101/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:872645/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:1632783/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:1764084/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:868751/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:1897031/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:2648695/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:2627273/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:623404/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:606147/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:244963/69‑1 (MQ=255)
gAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:3195410/68‑1 (MQ=255)
acagCAGCATCACAAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAg > 1:976148/1‑69 (MQ=255)
acacCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAg < 1:2714924/69‑1 (MQ=255)
acacCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAg < 1:106236/69‑1 (MQ=255)
acacCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAg < 1:1300576/69‑1 (MQ=255)
acacCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAg < 1:2984691/69‑1 (MQ=255)
acacCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAg < 1:2618057/69‑1 (MQ=255)
acacCAGCATCACAAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAg > 1:2207607/1‑69 (MQ=255)
acacCAGCATCACAAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAg > 1:2015742/1‑69 (MQ=255)
acCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTa < 1:3350615/69‑1 (MQ=255)
acCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTa < 1:1242653/69‑1 (MQ=255)
acCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTa < 1:1809248/69‑1 (MQ=255)
acCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTa < 1:1826556/69‑1 (MQ=255)
acCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTa < 1:676515/69‑1 (MQ=255)
acCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTa < 1:671975/69‑1 (MQ=255)
acCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTa < 1:2832863/69‑1 (MQ=255)
acCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTa < 1:289999/69‑1 (MQ=255)
acCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTa < 1:3289122/69‑1 (MQ=255)
aGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTATGt < 1:1975825/69‑1 (MQ=255)
aGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTATGt < 1:3050767/69‑1 (MQ=255)
aGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTATGt < 1:3128129/69‑1 (MQ=255)
aCCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTATGTTTCAGt > 1:978037/1‑69 (MQ=255)
|
CTAAGAAATGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATGATTGCCCGCCGTCTTTTCGGTTCAGTATGTTTCAGT > minE/2645828‑2645944
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
