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 |
2,878,535 |
T→C |
35.3% |
G210G (GGT→GGC) |
cycA → |
D‑alanine/D‑serine/glycine transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,878,535 | 0 | T | C | 35.3%
| 39.8
/ 36.8
| 65 | G210G (GGT→GGC) | cycA | D‑alanine/D‑serine/glycine transporter |
| Reads supporting (aligned to +/- strand): ref base T (8/34); new base C (14/9); total (22/43) |
| Fisher's exact test for biased strand distribution p-value = 1.02e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGCTTTCGTGGGGATTGAGCTGGTAGGTAC > minE/2878470‑2878603
|
tCACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:2394616/69‑1 (MQ=255)
tCACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:1684022/69‑1 (MQ=255)
tCACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:177210/69‑1 (MQ=255)
tCACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:2897973/69‑1 (MQ=255)
tCACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:2851234/69‑1 (MQ=255)
tCACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:2540032/69‑1 (MQ=255)
cACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTaa > 1:463178/1‑69 (MQ=255)
cACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTaa > 1:1943691/1‑69 (MQ=255)
cACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTaa > 1:1268271/1‑69 (MQ=255)
cACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTaa > 1:1867537/1‑69 (MQ=255)
cGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGt < 1:1660343/68‑1 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGCCGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:106567/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:1900426/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:1869252/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:1834548/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:222567/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:3023958/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:1083427/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:1017319/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:1262167/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:447825/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:3252109/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:3122264/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgcg > 1:1526883/1‑67 (MQ=255)
cGACCGGTGTGGAAGCATCATTTGCACATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGCTTAAgc > 1:2180391/1‑67 (MQ=255)
gACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGt < 1:2525710/67‑1 (MQ=255)
gAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGc > 1:3390497/1‑68 (MQ=255)
gAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGc > 1:2242116/1‑68 (MQ=255)
gAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGc > 1:2508767/1‑68 (MQ=255)
aTTCGCGCATTTGTTGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:45246/46‑1 (MQ=255)
aTTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGtta < 1:2350335/45‑2 (MQ=255)
aTTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:2862187/46‑1 (MQ=255)
aTTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:104689/46‑1 (MQ=255)
aTTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:842079/46‑1 (MQ=255)
aTTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:968055/46‑1 (MQ=255)
aTTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:1072870/46‑1 (MQ=255)
aTTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTa < 1:1504640/46‑1 (MQ=255)
cgcgCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGAt > 1:2592278/1‑69 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:2241476/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:999063/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:1221632/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:1290777/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:3366104/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:3130887/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:23491/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:1899721/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:2022135/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:2175665/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:2668213/69‑1 (MQ=255)
gAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGGTTTCGc < 1:99118/69‑1 (MQ=255)
aaTGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGc < 1:31310/68‑1 (MQ=255)
tGACGGCGGCTGGTTCCCGAAAGGCTTAAGCGGCTTCTTTGCCGGATTCCAGATAg < 1:430770/56‑1 (MQ=255)
tGACGGCGGCTGGTTCCCGAAAGGCTTAAGCGGCTTCTTTGCCGGATTCCAGATAg < 1:987771/56‑1 (MQ=255)
tGACGGCGGCTGGTTCCCGAAAGGCTTAAGCGGCTTCTTTGCCGGATTCCAGATAg < 1:1048044/56‑1 (MQ=255)
tGACGGCGGCTGGTTCCCGAAAGGCTTAAGCGGCTTCTTTGCCGGATTCCAGATAg < 1:2534636/56‑1 (MQ=255)
tGACGGCGGCTGGTTCCCGAAAGGCTTAAGCGGCTTCTTTGCCGGATTCCAGATAg < 1:1698337/56‑1 (MQ=255)
tGACGGCGGCTGGTTCCCGAAAGGCTTAAGCGGCTTCTTTGCCGGATTCCAGATAg < 1:3434927/56‑1 (MQ=255)
tGACGGCGGCTGGTTCCCGAAAGGCTTAAGCGGCTTCTTTGCCGGATTCCAGATAg < 1:3279041/56‑1 (MQ=255)
tGACGGCGGCTGGTTCCCGAAAGGCTTAAGCGGCTTCTTTGCCGGATTCCAGATAg < 1:15018/56‑1 (MQ=255)
tGACGGCGGCTGGTTCCCGAAAGGCTTAAGCGGCTTCTTTGCCGGATTCCAGATAg < 1:1974244/56‑1 (MQ=255)
cggcTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGCTTTCGTggg < 1:1254460/69‑1 (MQ=255)
cggcTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGCTTTCGTggg < 1:757826/69‑1 (MQ=255)
ggTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGCTTTCGTGGGGATTg < 1:64707/69‑1 (MQ=255)
ggTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGCTTTCGTGGGGATTg < 1:3230824/69‑1 (MQ=255)
ggTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGCTTTCGTGGGGATTg < 1:3027327/69‑1 (MQ=255)
ggTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTACAGATAGCGGTTTTCGCTTTCGTGGGGATTg < 1:1310653/69‑1 (MQ=255)
tttAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGCTTTCGTGGGGATTGAGCTGGTAGGTac < 1:787347/69‑1 (MQ=255)
|
TCACCGACTGGTGTGGAAGCGTCATTCGCGCATTTGTGGAATGACGGCGGCTGGTTCCCGAAAGGTTTAAGTGGCTTCTTTGCCGGATTCCAGATAGCGGTTTTCGCTTTCGTGGGGATTGAGCTGGTAGGTAC > minE/2878470‑2878603
|
| 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
