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 |
|
A1 F3 I0 R1
|
560 |
56.4 |
4650532 |
94.9% |
4413354 |
59.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,081,459 |
A→G |
11.3% |
F36L (TTT→CTT) |
yeeX ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,081,459 | 0 | A | G | 11.3%
| 158.3
/ 11.3
| 62 | F36L (TTT→CTT) | yeeX | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base A (30/25); new base G (5/2); total (35/27) |
| Fisher's exact test for biased strand distribution p-value = 4.55e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCTGATAATGTGAGAGTCGGA > W3110S.gb/2081391‑2081528
|
aCGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAAtt > 1:13219/1‑71 (MQ=255)
aCGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAAtt > 1:1853887/1‑71 (MQ=255)
cGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGTAACAGACGAACAAATTc < 1:4318169/71‑1 (MQ=255)
cTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAg < 1:2176455/69‑1 (MQ=255)
cTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAg < 1:1950247/69‑1 (MQ=255)
ttttCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACaaa > 1:1679300/1‑61 (MQ=255)
tttCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAg < 1:2232590/66‑1 (MQ=255)
tttCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTAc > 1:4350382/1‑69 (MQ=255)
tttCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACg < 1:147766/70‑1 (MQ=255)
tttCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGt > 1:390152/1‑71 (MQ=255)
tcAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTg > 1:142904/1‑71 (MQ=255)
cAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTg > 1:4150698/1‑70 (MQ=255)
cAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTg > 1:1982101/1‑70 (MQ=255)
aaCGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAGTTCCAGTACGTCCTgg > 1:934855/1‑70 (MQ=255)
cGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAAt > 1:165319/1‑71 (MQ=255)
gTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATg < 1:1373173/71‑1 (MQ=255)
cTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACaaa > 1:42441/1‑48 (MQ=255)
cTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAg < 1:3357291/71‑1 (MQ=255)
cTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAg > 1:2036616/1‑71 (MQ=255)
gAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAGTTCCAGTACGTCCTGGAATGAAGGc > 1:658055/1‑71 (MQ=255)
aaTTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAGTTCCAGTACGTCCTGGAATGAAGGCt < 1:4210844/71‑1 (MQ=255)
tttCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTg > 1:564161/1‑71 (MQ=255)
tCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTgg > 1:3850589/1‑70 (MQ=255)
tCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGGACGta > 1:2954259/1‑52 (MQ=255)
cACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTgg > 1:1535544/1‑69 (MQ=255)
ttGCAGTTTGTTCTTACGACGGAACAGACGAACAAGTTc < 1:543967/39‑1 (MQ=255)
ttGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGttt > 1:2166186/1‑71 (MQ=255)
ttGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGt > 1:605504/1‑69 (MQ=255)
gCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGttt > 1:4006227/1‑69 (MQ=255)
aGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCAt < 1:2919404/71‑1 (MQ=255)
tttGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTc < 1:2816193/66‑1 (MQ=255)
ttGTTCTTACGACGGAACAGACGAACAAATTCCAGTACg < 1:1815245/39‑1 (MQ=255)
ttGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTgg < 1:2929756/45‑1 (MQ=255)
tGTTCTTACGACGGAACAGACGAACAAGTTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCAtttt > 1:340681/1‑70 (MQ=255)
tGTTCTTACGACGGAACAGACGAACAAATTCCAGt > 1:1349396/1‑35 (MQ=255)
tGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTc > 1:2941202/1‑40 (MQ=255)
tGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTgg < 1:4263271/44‑1 (MQ=255)
tGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCAtttt > 1:255094/1‑70 (MQ=255)
tGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCAt < 1:2997034/67‑1 (MQ=255)
ttCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTta < 1:450249/70‑1 (MQ=255)
ttCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTta < 1:1313511/70‑1 (MQ=255)
ttCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTta < 1:538529/70‑1 (MQ=255)
ttCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTta < 1:1225426/70‑1 (MQ=255)
ttCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTta < 1:150565/70‑1 (MQ=255)
tCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTtata > 1:1514020/1‑71 (MQ=255)
acgacgGAACAGACGAACAAATTCCAGTACGTCCTGGaa > 1:1952214/1‑39 (MQ=255)
acgacgGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTtata > 1:1634544/1‑67 (MQ=255)
acgacgGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATAc < 1:150544/68‑1 (MQ=255)
cgacgGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCt < 1:3863977/71‑1 (MQ=255)
gacgGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTta > 1:722058/1‑63 (MQ=255)
gacgGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTta > 1:186978/1‑63 (MQ=255)
ggAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTgg > 1:2790327/1‑45 (MQ=255)
ggAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCTGATa < 1:1462871/71‑1 (MQ=255)
aCAGACGAACAAGTTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCTGATAAtg > 1:3398354/1‑71 (MQ=255)
aCAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGtt < 1:1649810/47‑1 (MQ=255)
aGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCAttt < 1:3424870/52‑1 (MQ=255)
gACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTta > 1:4058374/1‑54 (MQ=255)
aCGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCTGATAAtgt > 1:2324245/1‑68 (MQ=255)
gAACAAGTTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTta > 1:3946859/1‑51 (MQ=255)
gAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTtata > 1:962259/1‑53 (MQ=255)
gAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCTGATAATGTgag < 1:668690/69‑1 (MQ=255)
aaCAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCAtttt < 1:3220614/48‑1 (MQ=255)
aCAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCTGATAATGTGagag > 1:1349815/1‑69 (MQ=255)
cAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCTGATAAt > 1:1474679/1‑61 (MQ=255)
aaTTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCTGATAATGTGAGAGTCGGa < 1:2122229/71‑1 (MQ=255)
aTTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCAttt > 1:1386635/1‑42 (MQ=255)
|
ACGGATCTTTTTCTCAACGTCCTGAATTTCACGTTGCAGTTTGTTCTTACGACGGAACAGACGAACAAATTCCAGTACGTCCTGGAATGAAGGCTTGGTAGTTTCCATTTTTATACCCCTGATAATGTGAGAGTCGGA > W3110S.gb/2081391‑2081528
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
