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 |
2,350,543 |
G→A |
40.0% |
V337I (GTA→ATA) |
nrdA → |
ribonucleoside diphosphate reductase 1, alpha subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,350,543 | 0 | G | A | 40.0%
| 26.1
/ 44.7
| 40 | V337I (GTA→ATA) | nrdA | ribonucleoside diphosphate reductase 1, alpha subunit |
| Reads supporting (aligned to +/- strand): ref base G (4/20); new base A (10/6); total (14/26) |
| Fisher's exact test for biased strand distribution p-value = 5.88e-03 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.41e-01 |
GAAAGCCTGCTGGTGTTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGTT > W3110S.gb/2350474‑2350601
|
gAAAGCCTGCTGGTGTTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACgggg > 1:73387/1‑70 (MQ=255)
gtgtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATcaaca < 1:833218/70‑1 (MQ=255)
gtgtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATcaaca < 1:656277/70‑1 (MQ=255)
gtgtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATcaaca < 1:1331176/70‑1 (MQ=255)
gtgtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATcaaca < 1:1333138/70‑1 (MQ=255)
gtgtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATcaaca < 1:1433444/70‑1 (MQ=255)
gtgtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATcaaca < 1:1489227/70‑1 (MQ=255)
gtgtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATcaaca < 1:233641/70‑1 (MQ=255)
gtgtTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATcaaca < 1:1673753/70‑1 (MQ=255)
gAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGa > 1:1358884/1‑71 (MQ=255)
gAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGa > 1:1456718/1‑71 (MQ=255)
gAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGa > 1:568629/1‑71 (MQ=255)
gAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGATACAAATCAACAAACTGa > 1:1890965/1‑71 (MQ=255)
aacaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGta < 1:1097863/71‑1 (MQ=255)
aacaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGta < 1:868401/71‑1 (MQ=255)
aacaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGta < 1:104930/71‑1 (MQ=255)
acaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGtat < 1:1153922/71‑1 (MQ=255)
acaacCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGtat < 1:571271/71‑1 (MQ=255)
tgtgGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGta < 1:663406/60‑1 (MQ=255)
ggCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGtat < 1:234741/54‑1 (MQ=255)
aCCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGaa < 1:283827/71‑1 (MQ=255)
aCCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGaa < 1:1294307/71‑1 (MQ=255)
cgcgTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGta > 1:786306/1‑47 (MQ=255)
cgcgTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGta > 1:1521593/1‑47 (MQ=255)
cgcgTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTg > 1:837566/1‑67 (MQ=255)
cgcgTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTg > 1:727481/1‑67 (MQ=255)
gcgtgcgtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGat < 1:1794452/71‑1 (MQ=255)
gcgtgcgtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGat < 1:745771/71‑1 (MQ=255)
gcgtgcgtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGat < 1:510857/71‑1 (MQ=255)
cgtgcgtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGat < 1:676946/70‑1 (MQ=255)
gtgcgtCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGatat < 1:654513/71‑1 (MQ=255)
gtgcgtCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGatat < 1:1938862/71‑1 (MQ=255)
tgcgtCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGatat < 1:595065/70‑1 (MQ=255)
gtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCAcc < 1:218418/71‑1 (MQ=255)
gtCATATGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCAcc < 1:1785788/71‑1 (MQ=255)
tGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGtt > 1:481064/1‑70 (MQ=255)
tGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGtt > 1:1609918/1‑70 (MQ=255)
tGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGtt > 1:729006/1‑70 (MQ=255)
tGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGtt > 1:1715049/1‑70 (MQ=255)
tGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGtt > 1:1105847/1‑70 (MQ=255)
tGGACTACGGGATACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGtt > 1:1828498/1‑70 (MQ=255)
|
GAAAGCCTGCTGGTGTTGAAAAACAACCGTGGTGTGGAAGGCAACCGCGTGCGTCATATGGACTACGGGGTACAAATCAACAAACTGATGTATACCCGTCTGCTGAAAGGTGAAGATATCACCCTGTT > W3110S.gb/2350474‑2350601
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
