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 |
1,680,429 |
A→G |
36.7% |
D1515D (GAT→GAC) |
yfhM ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,680,429 | 0 | A | G | 36.7%
| 45.2
/ 48.3
| 79 | D1515D (GAT→GAC) | yfhM | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (31/19); new base G (8/21); total (39/40) |
| Fisher's exact test for biased strand distribution p-value = 4.83e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TTTTACCTGCAACCACACCAGCACCAGATCGCCGCTACGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGTGCGGATTGCG > minE/1680363‑1680493
|
ttttACCTGCAACCATACCAGCACCAGATCTCCGCTACGTAACGAGTCCAGCGATTTGCTCTTACCATc < 1:353064/69‑1 (MQ=255)
ttttACCTGCAACCACACCAGCACCAGATCGCCGCTACGTAACGAGTCCAGCGATTTGCTCTTACCATc < 1:157423/69‑1 (MQ=255)
ttttACCTGCAACCACACCAGCACCAGATCGCCGCTACGTAACGAGTCCAGCGATTTGCTCTTACCATc < 1:225942/69‑1 (MQ=255)
ttttACCTGCAACCACACCAGCACCAGATCGCCGCTACGTAACGAGTCCAGCGATTTGCTCTTACCATc < 1:2626522/69‑1 (MQ=255)
acacCAGCACCAGATCGCCGCTACGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGAatat > 1:2230593/1‑69 (MQ=255)
acacCAGCACCAGATCGCCGCTACGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGAatat > 1:1360146/1‑69 (MQ=255)
ccagATCGCCGCTACGTAACGAGTCCAGCGACTTGCTCTTACCATCAGTACCAAGaa > 1:869739/1‑57 (MQ=255)
ccagATCGCCGCTACGTAACGAGTCCAGCGACTTGCTCTTACCATCAGTACCAAGAatat > 1:2361200/1‑60 (MQ=255)
ccagATCGCCGCTACGTAACGAGTCCAGCGACTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGa > 1:2647119/1‑69 (MQ=255)
ccagATCGCCGCTACGTAACGAGTCCAGCGACTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGa > 1:2080480/1‑69 (MQ=255)
ccagATCGCCGCTACGTAACGAGTCCAGCGACTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGa > 1:368050/1‑69 (MQ=255)
ccagATCGCCGCTACGTAACGAGTCCAGCGACTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGa > 1:1916803/1‑69 (MQ=255)
ccagATCGCCGCTACGTAACGAGTCCAGCGACTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGa > 1:2361780/1‑69 (MQ=255)
ccagATCGCCGCTACGTAACGAGTCCAGCGACTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGa > 1:615176/1‑69 (MQ=255)
ccagATCGCCGCTACGTAACGAGTCCAGCGACTTGCTCTTACCATCAGTACCAAGAATATGAAGCTCGa > 1:1291055/1‑69 (MQ=255)
aCGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGaa > 1:2992885/1‑44 (MQ=255)
aCGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGaa > 1:961182/1‑44 (MQ=255)
aCGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGaa > 1:228796/1‑44 (MQ=255)
aCGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGaa > 1:232692/1‑44 (MQ=255)
aCGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGaa > 1:1067007/1‑44 (MQ=255)
aCGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGaa > 1:786924/1‑44 (MQ=255)
aCGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGaa > 1:1332502/1‑44 (MQ=255)
aCGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGaa > 1:85235/1‑44 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:3257791/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:2977438/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:3168181/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:2354138/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:3006385/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:2634297/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:2299635/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:209842/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:1168551/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:1402823/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:761137/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:1475999/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:701273/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:630421/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:1544247/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:1606064/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:431392/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:2041503/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:2191917/69‑1 (MQ=255)
aaCGAGTCCAGCGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCACCACATTGCTc < 1:2069956/69‑1 (MQ=255)
tCCAGCGATTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTc > 1:1783113/1‑63 (MQ=255)
tCCAGCGATTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCgg > 1:3340585/1‑68 (MQ=255)
tCCAGCGATTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCgg > 1:193906/1‑68 (MQ=255)
tCCAGCGATTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCgg > 1:2632810/1‑68 (MQ=255)
cAGCGATTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTaa < 1:2477789/69‑1 (MQ=255)
cGATTTGCTCTTACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTc < 1:1829940/58‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:1119687/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:1493398/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:3416577/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:2419497/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:1417996/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:2445363/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:3254433/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:1305825/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:266390/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:2978992/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:2801221/69‑1 (MQ=255)
ttGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:126743/69‑1 (MQ=255)
tGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcg < 1:1487190/68‑1 (MQ=255)
tACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTCGCCGGTAAAgg > 1:786730/1‑58 (MQ=255)
tACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTCGCCGGTAAAGGtgcggattgcg > 1:861807/1‑69 (MQ=255)
tACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTCGCCGGTAAAGGtgcggattgcg > 1:541742/1‑69 (MQ=255)
tACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTCGCCGGTAAAGGtgcggattgcg > 1:2401994/1‑69 (MQ=255)
tACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTCGCCGGTAAAGGtgcggattgcg > 1:518988/1‑69 (MQ=255)
tACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTCGCCGGTAAAGGtgcggattgcg > 1:2021227/1‑69 (MQ=255)
tACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTCGCCGGTAAAGGtgcggattgcg > 1:2580015/1‑69 (MQ=255)
tACCGTCAGTACCCAGAATATGACGCTCAATTTGCAGCACATTGCTCGCCGGTAAAGGtgcggattgcg > 1:3134919/1‑69 (MQ=255)
aCCATCAGTACCAATAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAgg < 1:3285114/57‑1 (MQ=255)
aCCATCAGTACCAAGAATATGCCGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcggattgcg > 1:1790379/1‑68 (MQ=255)
aCCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGc > 1:2876206/1‑48 (MQ=255)
aCCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcggattgcg > 1:478502/1‑68 (MQ=255)
aCCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcggattgcg > 1:2842619/1‑68 (MQ=255)
aCCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcggattgcg > 1:3429185/1‑68 (MQ=255)
aCCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcggattgcg > 1:2628371/1‑68 (MQ=255)
aCCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGtgcggattgcg > 1:2956425/1‑68 (MQ=255)
aCCATCAGTACCAAGAAAATGACGCTCGATTTGCAGCACATAGTTCGCCGGTAAAGGtgcggattgcg > 1:1343807/1‑68 (MQ=255)
|
TTTTACCTGCAACCACACCAGCACCAGATCGCCGCTACGTAACGAGTCCAGCGATTTGCTCTTACCATCAGTACCAAGAATATGACGCTCGATTTGCAGCACATTGTTCGCCGGTAAAGGTGCGGATTGCG > minE/1680363‑1680493
|
| 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
