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 F21 I0 R2
|
308 |
27.9 |
1975068 |
96.7% |
1909890 |
67.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
1,832,108 |
C→T |
52.2% |
T124T (ACG→ACA) |
astA ← |
arginine succinyltransferase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 1,832,108 | 0 | C | T | 52.2%
| ‑2.3
/ 29.6
| 23 | T124T (ACG→ACA) | astA | arginine succinyltransferase |
| Reads supporting (aligned to +/- strand): ref base C (7/4); new base T (9/3); total (16/7) |
| Fisher's exact test for biased strand distribution p-value = 6.67e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
AACATAAAGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGT > W3110S.gb/1832040‑1832166
|
aacataaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGt > 1:1561924/1‑71 (MQ=255)
aacataaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGt > 1:699772/1‑71 (MQ=255)
ataaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGca < 1:754569/71‑1 (MQ=255)
taaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGca < 1:1067993/70‑1 (MQ=255)
taaaGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGca < 1:897675/70‑1 (MQ=255)
ttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgctgct > 1:1601720/1‑71 (MQ=255)
ttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgctgct > 1:657655/1‑71 (MQ=255)
ttCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCgctgc > 1:1613032/1‑70 (MQ=255)
tCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGctgctg > 1:1242556/1‑71 (MQ=255)
tCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGctgctg > 1:1693527/1‑71 (MQ=255)
gCCGTTGCCCTCTTTGCGCCAGTCCGGGTGAAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGt < 1:484025/71‑1 (MQ=255)
gCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGGTCGCTGCTGCCGGTGTGATCGTTACt > 1:696645/1‑69 (MQ=255)
gCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTAc > 1:1438801/1‑68 (MQ=255)
gCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACt > 1:591774/1‑69 (MQ=255)
cGGGTCGAGAAACAGTGTGCACAGCTCGCtgctgc > 1:1803648/1‑35 (MQ=255)
cGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAAt > 1:23079/1‑70 (MQ=255)
cGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATg > 1:1874806/1‑71 (MQ=255)
cGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATg > 1:423837/1‑71 (MQ=255)
cGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATg > 1:1733466/1‑71 (MQ=255)
cGGGTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATg > 1:700244/1‑71 (MQ=255)
gTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGt < 1:398581/71‑1 (MQ=255)
gTCGAGAAACAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGt < 1:1487908/71‑1 (MQ=255)
cAGTGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGt < 1:646797/62‑1 (MQ=255)
|
AACATAAAGCGCGATTTCGACAGCAAATAGCCGTTGCCCTCTTTGCGCCAGTCCGGGTCGAGAAACAGCGTGCACAGCTCGCTGCTGCCGGTGTGATCGTTACTGAGAAACAGCGTCGGCAATGCGT > W3110S.gb/1832040‑1832166
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
