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 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,663,570 |
Δ1 bp |
30.9% |
coding (552/882 nt) |
yfhR → |
predicted peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,663,570 | 0 | T | . | 30.9%
| 104.2
/ 61.1
| 55 | coding (552/882 nt) | yfhR | predicted peptidase |
| Reads supporting (aligned to +/- strand): ref base T (21/17); new base . (9/8); total (30/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.95e-01 |
GTATTGGCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGG > W3110S.gb/2663512‑2663632
|
gTATTGGCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACG‑GCGGTGATCCTc > 1:890849/1‑70 (MQ=255)
gTATTGGCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACG‑GCGGTGATCCTc > 1:3046484/1‑70 (MQ=255)
ttGGCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGAc > 1:1050983/1‑71 (MQ=255)
ttGGCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGAc > 1:1421807/1‑71 (MQ=255)
ttGGCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGAc > 1:3439855/1‑71 (MQ=255)
ggCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTc > 1:430744/1‑71 (MQ=255)
ggCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTc > 1:3702492/1‑71 (MQ=255)
ggCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTc > 1:3511/1‑71 (MQ=255)
ggCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTc > 1:2948959/1‑71 (MQ=255)
ggCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTc > 1:2287706/1‑71 (MQ=255)
ggCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACG‑GCGGTGATCCTCGACTc > 1:866491/1‑70 (MQ=255)
gCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTc < 1:88203/70‑1 (MQ=255)
ggggCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCca > 1:2922041/1‑70 (MQ=255)
gCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACG‑GCGGTGATCCTCGACTCCACAttt < 1:2079231/71‑1 (MQ=255)
gCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACG‑GCGGTGATCCTCGACTCCACAttt < 1:2758315/71‑1 (MQ=255)
aaTATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTg < 1:987581/46‑1 (MQ=255)
aaTATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGc < 1:1486534/71‑1 (MQ=255)
aaTATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACG‑GCGGTGATCCTCGACTCCACATTTGcc < 1:180606/71‑1 (MQ=255)
tatTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCct > 1:1887559/1‑71 (MQ=255)
tatTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGT‑‑GGTGATCCTCGACTCCACATTTGCctct < 1:1806842/71‑1 (MQ=255)
tatTCTGGATGTTATTGGGCGGGGTGATCGTGAAGGCATACGTG‑GG‑GATCCTCGACTCCACATTTGCctct < 1:1802124/71‑1 (MQ=255)
ttCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCctct < 1:1577231/71‑1 (MQ=255)
ttCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCctct < 1:3479575/71‑1 (MQ=255)
gTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACAtt > 1:2026275/1‑56 (MQ=255)
gTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACAtt > 1:397096/1‑56 (MQ=255)
gTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACAtt > 1:2135767/1‑56 (MQ=255)
ttATTGGTCGGGGTGATCGTGAAGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCctct < 1:3448854/61‑1 (MQ=255)
ttATTGGTCGGGGTGATCGTGAAGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCctct < 1:3871139/61‑1 (MQ=255)
ttATTGGTCGGGGTGATCGTGAAGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCctct < 1:3536058/61‑1 (MQ=255)
aTTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCAt > 1:2836561/1‑71 (MQ=255)
tGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCg > 1:894156/1‑71 (MQ=255)
aTCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAAt > 1:1480297/1‑70 (MQ=255)
aTCGTGAAGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGa > 1:966935/1‑71 (MQ=255)
cGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGAt > 1:2921387/1‑71 (MQ=255)
cGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGAt > 1:1012858/1‑71 (MQ=255)
cGTGAAGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCctct < 1:2676822/44‑1 (MQ=39)
tGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATcc < 1:1215797/71‑1 (MQ=255)
tGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATcc < 1:3267116/71‑1 (MQ=255)
aaGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCCTCTTa > 1:1964927/1‑42 (MQ=39)
aaGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCCTCTTa > 1:1224483/1‑42 (MQ=39)
aaGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCCTCTTa > 1:2690089/1‑42 (MQ=39)
aaGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCCTCTTa > 1:3245891/1‑42 (MQ=39)
aGGCATACG‑GCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCgg < 1:3274361/71‑1 (MQ=255)
ggCATACG‑GCGGTGATCCTCGACTCCACATTTGCCTCTTa > 1:2342042/1‑40 (MQ=39)
aTACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGc < 1:2504908/41‑1 (MQ=255)
aTACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGc < 1:3679408/41‑1 (MQ=255)
aTACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGc < 1:3479510/41‑1 (MQ=255)
tACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:3720552/56‑1 (MQ=255)
tACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:399035/56‑1 (MQ=255)
tACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:63152/56‑1 (MQ=255)
tACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:789175/56‑1 (MQ=255)
tACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:3190814/56‑1 (MQ=255)
cGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAAt > 1:2773739/1‑56 (MQ=255)
cGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAAt > 1:2777950/1‑56 (MQ=255)
cGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAAt > 1:3602443/1‑56 (MQ=255)
tGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:2113827/52‑1 (MQ=255)
tGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:2718576/52‑1 (MQ=255)
tGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:1716436/52‑1 (MQ=255)
|
GTATTGGCGGGGCGAATATTCTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGG > W3110S.gb/2663512‑2663632
|
| 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
