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 F28 I2 R2
|
356 |
55.1 |
4139924 |
95.4% |
3949487 |
63.8 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,276,693 |
Δ1 bp |
coding (996/1815 nt) |
yejA → |
predicted oligopeptide transporter subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,276,691 | 0 | T | . | 81.2%
| 130.6
/ 34.2
| 48 | coding (994/1815 nt) | yejA | predicted oligopeptide transporter subunit |
| Reads supporting (aligned to +/- strand): ref base T (9/0); new base . (9/30); total (18/30) |
| Fisher's exact test for biased strand distribution p-value = 2.90e-05 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
TCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGCACGAACAGTTATT > W3110S.gb/2276638‑2276754
|
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:3825290/70‑1 (MQ=255)
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:2676142/70‑1 (MQ=255)
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:3384745/70‑1 (MQ=255)
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:3611934/70‑1 (MQ=255)
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:885762/70‑1 (MQ=255)
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:3293254/70‑1 (MQ=255)
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:2901934/70‑1 (MQ=255)
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:1704949/70‑1 (MQ=255)
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:3268830/70‑1 (MQ=255)
tCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATg < 1:1767130/70‑1 (MQ=255)
cAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGaa > 1:1180391/1‑70 (MQ=255)
cAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGaa > 1:3976111/1‑70 (MQ=255)
cAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGaa > 1:1721408/1‑70 (MQ=255)
cAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGaa > 1:3383889/1‑70 (MQ=255)
cAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGaa > 1:1485422/1‑70 (MQ=255)
cAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGaa > 1:3415153/1‑70 (MQ=255)
aGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTAc < 1:835420/71‑1 (MQ=255)
gagATCGCCGGGTCCGGGAAGCTATCACTCTCGCctttga > 1:3264840/3‑40 (MQ=255)
gCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTa > 1:3286936/1‑70 (MQ=255)
gCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTa > 1:2736381/1‑70 (MQ=255)
gCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTa > 1:3537856/1‑70 (MQ=255)
gCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTa > 1:2237967/1‑70 (MQ=255)
gCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTa > 1:2216847/1‑70 (MQ=255)
gCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTa > 1:888543/1‑70 (MQ=255)
gCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTa > 1:2169220/1‑70 (MQ=255)
tCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATgg < 1:2164429/45‑1 (MQ=255)
tCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATgg < 1:1488893/45‑1 (MQ=255)
tCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATgg < 1:1503078/45‑1 (MQ=255)
tCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATgg < 1:2813206/45‑1 (MQ=255)
tCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATgg < 1:3031567/45‑1 (MQ=255)
tCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATgg < 1:868894/45‑1 (MQ=255)
tCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATgg < 1:1847369/45‑1 (MQ=255)
tCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATgg < 1:1643693/45‑1 (MQ=255)
tCGCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATgg < 1:1515007/45‑1 (MQ=255)
gCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGTAt > 1:390216/1‑45 (MQ=255)
gCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGAt > 1:725841/1‑45 (MQ=255)
gCCGGGTCCGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGAt > 1:2104553/1‑45 (MQ=255)
cGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGc < 1:2082601/71‑1 (MQ=255)
cGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGc < 1:2710403/71‑1 (MQ=255)
cGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGc < 1:2114224/71‑1 (MQ=255)
cGGGAAGCTATCACTCTCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGc < 1:2633903/71‑1 (MQ=255)
tCACTCTCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGttt < 1:972031/43‑1 (MQ=38)
cACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGCACGAACAGt > 1:2121879/1‑70 (MQ=255)
cACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGCACGAACAGt > 1:2117159/1‑70 (MQ=255)
ctctCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGCACGAACAGTTAtt < 1:2787553/71‑1 (MQ=255)
ctctCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGCACGAACAGTTAtt < 1:4122112/71‑1 (MQ=255)
ctctCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGCACGAACAGTTAtt < 1:1511314/71‑1 (MQ=255)
ctctCGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGCACGAACAGTTAtt < 1:1390856/71‑1 (MQ=255)
tctcGCC‑TTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGCACGAACAGTTAtt < 1:2308257/70‑1 (MQ=255)
tttgactttgaATGGATGAACAAGGCGTTGTTTTAc < 1:3702111/36‑1 (MQ=255)
tttgactttgaATGGATGAACAAGGCGTTGTTTTAc < 1:4083267/36‑1 (MQ=255)
tttgactttgaATGGATGAACAAGGCGTTGTTTTAc < 1:70058/36‑1 (MQ=255)
tttgactttgaATGGATGAACAAGGCGTTGTTTTAc < 1:2105104/36‑1 (MQ=255)
tttgactttgaATGGATGAACAAGGCGTTGTTTTAc < 1:2082369/36‑1 (MQ=255)
tttgactttgaATGGATGAACAAGGCGTTGTTTTAc < 1:1905347/36‑1 (MQ=255)
tttgactttgaATGGATGAACAAGGCGTTGTTTTAc < 1:14841/36‑1 (MQ=255)
|
TCCAACGTCCGGTATTCAGCGATCGCCGGGTCCGGGAAGCTATCACTCTCGCCTTTGACTTTGAATGGATGAACAAGGCGTTGTTTTACAATGCCTGGAGTCGCACGAACAGTTATT > W3110S.gb/2276638‑2276754
|
| 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
