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 |
1,094,838 |
G→A |
23.7% |
F513F (TTC→TTT) |
ydiJ ← |
predicted FAD‑linked oxidoreductase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,094,838 | 0 | G | A | 23.7%
| 51.2
/ 10.3
| 42 | F513F (TTC→TTT) | ydiJ | predicted FAD‑linked oxidoreductase |
| Reads supporting (aligned to +/- strand): ref base G (13/19); new base A (3/7); total (16/26) |
| Fisher's exact test for biased strand distribution p-value = 7.15e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.82e-01 |
TGAGTCGGTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAACCACCGTA > minE/1094774‑1094903
|
tGAGTCGGTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGaaaa < 1:3314212/69‑1 (MQ=255)
tGAGTCGGTTATGCGGATCAAACTCCGCTTTCACTTTACGCAGTTCTGCAAAAAGTTCCTCACCAaaaa < 1:1368018/69‑1 (MQ=255)
tGAGTCGGTTATGCGGATCAAACGCCGCTTTCACTTTACGCAGTTCTGCAAAAAGTTCCTCACCAaaaa < 1:1085278/69‑1 (MQ=255)
tGAGTCGGTTATGCGGATCAAACGCCGCTTTCACTTTACGCAGTTCTGCAAAAAGTTCCTCACCAaaaa < 1:3089865/69‑1 (MQ=255)
tGAGTCGGTTATGCGGATCAAACGCCGCTTTCACTTTACGCAGTTCTGCAAAAAGTTCCTCACCAaaaa < 1:3176261/69‑1 (MQ=255)
tGAGTCGGTTATGCGGATCAAACGCCGCTTTCACTTTACGCAGTTCTGCAAAAAGTTCCTCACCAaaaa < 1:1851169/69‑1 (MQ=255)
tGAGTCGGTTATGCGGATCAAACGCCGCTTTCACTTTACGCAGTTCTGCAAAAAGTTCCTCACCAaaaa < 1:1269326/69‑1 (MQ=255)
gAGTCGGTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGaaaaa > 1:671547/1‑69 (MQ=255)
gAGTCGGTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGaaaaa < 1:2811315/69‑1 (MQ=255)
tCGGTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGc > 1:2648831/1‑69 (MQ=255)
tCGGTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGc > 1:44007/1‑69 (MQ=255)
ggTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACg > 1:784605/1‑66 (MQ=255)
ggTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACg > 1:1867660/1‑66 (MQ=255)
ggTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACg > 1:498681/1‑66 (MQ=255)
ggTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACg > 1:1196997/1‑66 (MQ=255)
ggTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACg > 1:1550397/1‑66 (MQ=255)
ggTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACg > 1:1444000/1‑66 (MQ=255)
ggTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCAACGAAAAACg > 1:66864/1‑66 (MQ=255)
gCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCTg < 1:501485/68‑1 (MQ=255)
gCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCTg < 1:1007504/68‑1 (MQ=255)
gCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCTg < 1:2768414/68‑1 (MQ=255)
cGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCCGTa < 1:2531402/69‑1 (MQ=255)
tCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCTGTATTc > 1:2097722/1‑68 (MQ=255)
aaaCGCCGCTTTCACTTTACGCAGTTCTGCAAAAAGTTCCTCACCAaaaa < 1:902072/50‑1 (MQ=38)
ccGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCTGGCTGTATTCAGCGCGaa < 1:2595822/69‑1 (MQ=255)
ccGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGaa < 1:1576979/69‑1 (MQ=255)
ccGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGaa < 1:2394857/69‑1 (MQ=255)
cgcAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTg < 1:2525167/68‑1 (MQ=255)
tCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGaa < 1:1656862/37‑1 (MQ=255)
tCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCacaaca < 1:2349588/64‑1 (MQ=255)
tCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCacaaca < 1:2316137/64‑1 (MQ=255)
tCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAacca > 1:3275268/1‑69 (MQ=255)
tCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAacca > 1:561210/1‑69 (MQ=255)
ccTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAaccac < 1:2634677/69‑1 (MQ=255)
ccTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAaccac < 1:1299212/69‑1 (MQ=255)
ccTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAaccac < 1:2151843/69‑1 (MQ=255)
ccTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAaccac < 1:2753196/69‑1 (MQ=255)
cACCGAAAAACGCCGGTCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAACCACCg < 1:2992122/68‑1 (MQ=255)
cACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAACCACCg < 1:1183250/68‑1 (MQ=255)
aCCAAAAAACGCCGGGCTGTATTCGGCGCGAAAACCTTTGCCGTGTTCGCCCCACAACAAACCACCGTa > 1:3409888/1‑69 (MQ=255)
aCCAAAAAACGCCGGGCTGTATTCGGCGCGAAAACCTTTGCCGTGTTCGCCCCACAACAAACCACCGTa > 1:702546/1‑69 (MQ=255)
aCCAAAAAACGCCGGGCTGTATTCGGCGCGAAAACCTTTGCCGTGTTCGCCCCACAACAAACCACCGTa > 1:1217637/1‑69 (MQ=255)
|
TGAGTCGGTTATGCGGGTCAAATGCCGCTTTCACTTTGCGCAGTTCTGCAAAAAGTTCCTCACCGAAAAACGCCGGGCTGTATTCAGCGCGAAAACCTTTGCCGTGCTCGCCCCACAACAAACCACCGTA > minE/1094774‑1094903
|
| 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
