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 |
2,645,851 |
A→G |
35.4% |
G58G (GGT→GGC) |
yhgN ← |
predicted antibiotic transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,645,851 | 0 | A | G | 35.4%
| 60.8
/ 57.1
| 96 | G58G (GGT→GGC) | yhgN | predicted antibiotic transporter |
| Reads supporting (aligned to +/- strand): ref base A (30/32); new base G (12/22); total (42/54) |
| Fisher's exact test for biased strand distribution p-value = 2.83e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.71e-01 |
ATGCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATG > minE/2645792‑2645908
|
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc < 1:2668077/69‑1 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:756534/1‑69 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc < 1:1108127/69‑1 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:1110938/1‑69 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc < 1:3385173/69‑1 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:1183369/1‑69 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:120244/1‑69 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:598817/1‑69 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:2906636/1‑69 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:1390350/1‑69 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc < 1:1423432/69‑1 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:2726315/1‑69 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:1445360/1‑69 (MQ=255)
atgCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAAc > 1:464730/1‑69 (MQ=255)
ccgccAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg < 1:1327397/69‑1 (MQ=255)
ccAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAGGAac < 1:1103612/69‑1 (MQ=255)
aaTGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:596374/1‑61 (MQ=255)
aaTGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:2713737/1‑61 (MQ=255)
aaTGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:446383/1‑61 (MQ=255)
aaTGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:2323675/1‑61 (MQ=255)
tGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGc > 1:2804111/1‑68 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:481715/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:476270/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:2616089/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:731575/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:230365/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:2661911/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:645919/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:2080244/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:2838308/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:1522572/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAgg > 1:2004068/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACACGCAAACAgg > 1:595282/1‑57 (MQ=255)
gagaCGGTTTCTGCTCGTAGGCTAAGAAATG‑CAGAATTTTCTCACCCGCAAACAgg > 1:652623/1‑56 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGTCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:2498373/1‑66 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAgg > 1:769971/1‑52 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGa > 1:1744944/1‑53 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:1784227/1‑66 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:278358/1‑66 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:2381918/1‑66 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:589539/1‑66 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:3290474/1‑66 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:3321459/1‑66 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:2731781/1‑66 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:509656/1‑66 (MQ=255)
ggTTTCTGCCCGCAGGCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCAca > 1:2772214/1‑66 (MQ=255)
gCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGaa < 1:286491/39‑1 (MQ=255)
gCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGaa < 1:2796386/39‑1 (MQ=255)
gCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGaa < 1:2390920/39‑1 (MQ=255)
gCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGaa < 1:1757102/39‑1 (MQ=255)
gCTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGaa < 1:1431632/39‑1 (MQ=255)
cTAAGAAATGCCAGAATTTTCTCGCCCGCAAACAGGaa < 1:2191594/38‑1 (MQ=255)
cTAAGAAATGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAAc < 1:2870715/69‑1 (MQ=255)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:3023577/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:3059658/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:375713/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:369667/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:347122/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:521450/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:525392/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:2417073/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:2255677/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:2151246/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1803429/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1763779/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1560081/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:867879/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1117783/51‑1 (MQ=38)
aaGAAATGCCAGAATTTTCTCGCCCGCAAACAGGAACACCAGCATCACAAg < 1:1003002/51‑1 (MQ=38)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCTCAc < 1:1588184/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:973679/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc > 1:231812/1‑69 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc > 1:1053818/1‑69 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2121346/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2125378/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2329313/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2536556/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:3398187/69‑1 (MQ=255)
tGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCAc < 1:2722648/69‑1 (MQ=255)
ggAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:2058965/68‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:623404/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:872645/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:868751/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:1214504/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:1632783/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:1764084/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:1897031/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:3323271/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:606147/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:3406497/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:3101180/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:244963/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:2964101/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:2627273/69‑1 (MQ=255)
aGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:2648695/69‑1 (MQ=255)
gAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATg < 1:3195410/68‑1 (MQ=255)
|
ATGCCGCCAGAAATGGAGACGGTTTCTGCTCGTAGGCTAAGAAATGCCAGAATTTTCTCACCCGCAAACAGGAACACCAGCATCACCAGGAGAGCAATAAGCAACTCTCGCACCATG > minE/2645792‑2645908
|
| 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
