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 |
|
A5 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,237,438 |
G→A |
24.5% |
P461S (CCA→TCA) |
ycgB ← |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,237,438 | 0 | G | A | 24.5%
| 90.8
/ 28.5
| 49 | P461S (CCA→TCA) | ycgB | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (24/13); new base A (9/3); total (33/16) |
| Fisher's exact test for biased strand distribution p-value = 7.26e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.09e-01 |
CCCCACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAATAT > W3110S.gb/1237371‑1237497
|
ccccACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGaaa > 1:3111914/1‑70 (MQ=255)
ccccACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGaaa > 1:3182712/1‑70 (MQ=255)
cccACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAata < 1:3242203/71‑1 (MQ=255)
ccACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAatat < 1:3043460/71‑1 (MQ=255)
ccACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAatat < 1:4350523/71‑1 (MQ=255)
ccACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAatat < 1:637103/71‑1 (MQ=255)
ccACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAatat < 1:2178892/71‑1 (MQ=255)
caGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAAc > 1:1146805/1‑71 (MQ=255)
caGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAAc > 1:3225830/1‑71 (MQ=255)
caGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAAc > 1:730161/1‑71 (MQ=255)
gATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGc > 1:3047434/1‑71 (MQ=255)
gCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGt > 1:4751258/1‑70 (MQ=255)
cacaTGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTc < 1:911214/70‑1 (MQ=255)
cacaTGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTc < 1:1439113/70‑1 (MQ=255)
cacaTGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAat > 1:2904124/1‑57 (MQ=255)
cacaTGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTc < 1:4148464/70‑1 (MQ=255)
aTGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCg < 1:2499067/71‑1 (MQ=255)
tGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGa > 1:707524/1‑51 (MQ=255)
tGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCg > 1:1760346/1‑70 (MQ=255)
gCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGaa > 1:2653027/1‑71 (MQ=255)
ttCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATaa > 1:3238689/1‑54 (MQ=255)
cAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACgg > 1:4808907/1‑70 (MQ=255)
ggACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGaa > 1:4724935/1‑65 (MQ=255)
ggACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGaa > 1:3432141/1‑65 (MQ=255)
ggACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAAAGCAGCGACAGCGaa > 1:204012/1‑65 (MQ=255)
ttcttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGaa > 1:369578/1‑41 (MQ=255)
ttcttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGaa > 1:3766446/1‑41 (MQ=255)
cttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCcgcg > 1:4150383/1‑70 (MQ=255)
cttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCcgcg > 1:2134846/1‑70 (MQ=255)
cttTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCcgcg > 1:1726444/1‑70 (MQ=255)
tGCGCCCCCGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCaa < 1:1069648/70‑1 (MQ=255)
cGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCaaa > 1:4819115/1‑63 (MQ=255)
cGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGtt > 1:4126497/1‑71 (MQ=255)
cGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGtt > 1:1058804/1‑71 (MQ=255)
cGATCCAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGtt > 1:4262759/1‑71 (MQ=255)
cAGCGGTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGa < 1:4050919/71‑1 (MQ=255)
aGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTc > 1:3195740/1‑66 (MQ=255)
cGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCt < 1:379859/71‑1 (MQ=255)
ggTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCt > 1:4401166/1‑70 (MQ=255)
ggTGCGCGATTATGTGAAATATAACGCAGCGTCAGCGAACGGTcgc > 1:911713/1‑46 (MQ=255)
gTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCa > 1:1251788/1‑64 (MQ=255)
gTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCa > 1:3081629/1‑64 (MQ=255)
gcgcGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTc < 1:2229251/60‑1 (MQ=255)
gcgcGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTc < 1:1934720/60‑1 (MQ=255)
cgcgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAata < 1:2225988/71‑1 (MQ=255)
gcgATTATGTGGAATATAACGCAGCGTCAGCGAACg < 1:4155991/36‑1 (MQ=255)
gcgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAatat > 1:436093/1‑71 (MQ=255)
gcgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAatat > 1:4893909/1‑71 (MQ=255)
gcgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAatat > 1:152409/1‑71 (MQ=255)
cgATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAatat > 1:2877686/1‑70 (MQ=255)
aTTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAata > 1:2704355/1‑67 (MQ=255)
|
CCCCACAGGCGATGCACATGCTTCAGGACTTCTTTGCGCCCCCGATCCAGCGGTGCGCGATTATGTGGAATATAACGCAGCGTCAGCGAACGGTCGCCGCGCAAATCCACGTTCCAGATCTGAATAT > W3110S.gb/1237371‑1237497
|
| 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
