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 |
1,576,210 |
A→G |
74.0% |
F278F (TTT→TTC) |
xapB ← |
xanthosine transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,576,210 | 0 | A | G | 74.0%
| 76.0
/ 22.5
| 65 | F278F (TTT→TTC) | xapB | xanthosine transporter |
| Reads supporting (aligned to +/- strand): ref base A (10/7); new base G (38/10); total (48/17) |
| Fisher's exact test for biased strand distribution p-value = 1.18e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.57e-01 |
GGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGAAACTGACAG > minE/1576147‑1576275
|
ggCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCg > 1:971656/1‑69 (MQ=255)
ggCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCg > 1:447414/1‑69 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:3425575/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:1292676/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:307447/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:1417020/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:1474478/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:2457768/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:2436243/69‑1 (MQ=255)
agCCAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:2410078/69‑1 (MQ=255)
ccAAAGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:1293577/67‑1 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCGAATCGCTTTAAAAAGa > 1:1796625/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:1130899/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:299675/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:2745226/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:2576754/1‑69 (MQ=255)
cAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGa > 1:1642719/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:585433/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:2798880/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1313507/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:2699936/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:3014563/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:3074580/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:3177114/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1558652/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:483524/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:533103/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:2530902/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1562002/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:601121/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:709589/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:793250/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:2254404/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:807654/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1979483/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:83008/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:1878450/1‑69 (MQ=255)
aaaGCGCAGCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGaa > 1:178617/1‑69 (MQ=255)
gCGTCCACGCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCaaaa < 1:164067/57‑1 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGtata < 1:2884267/69‑1 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGtata < 1:2690014/69‑1 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGtata < 1:2361101/69‑1 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTAAGtata < 1:441364/69‑1 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTAtc > 1:1036540/1‑59 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAg > 1:697944/1‑65 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:532439/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:886772/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:2299568/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:665773/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:602423/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:1615956/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:2536945/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:2556439/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:1143667/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:1182347/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:3161728/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:1311485/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACCGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:1435194/1‑68 (MQ=255)
gCCACCATACTCATCAGCATGACGGTTTTAATACAGAAACGCTTCAAAAAGAACGGTATCGTCAGaat > 1:1970310/1‑68 (MQ=255)
aCGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCtg > 1:3429267/1‑68 (MQ=255)
ttttAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGaaa < 1:1784649/69‑1 (MQ=255)
ttttAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGaaa < 1:2650624/69‑1 (MQ=255)
ttttAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGaaa < 1:235661/69‑1 (MQ=255)
ccAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGAAACTGACAg > 1:2070951/1‑68 (MQ=255)
ccAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGAAACTGACAg > 1:2691599/1‑68 (MQ=255)
|
GGCGAAGAAGCCAAAGCGCAGCGTCCAGGCCACCATACTCATCAGCATGACGGTTTTAATGCCAAATCGCTTTAAAAAGAATGGGATAGTCAGTATAAAGCCCACTTCTGCCATCTGTGAAACTGACAG > minE/1576147‑1576275
|
| 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
