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 F28 I1 R1
|
122 |
92.7 |
4382561 |
94.3% |
4132755 |
66.1 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
minE |
1,352,427 |
T→C |
N101D (AAC→GAC) |
thiD ← |
bifunctional hydroxy‑methylpyrimidine kinase and hydroxy‑phosphomethylpyrimidine kinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,352,427 | 0 | T | C | 100.0%
| 165.7
/ NA
| 45 | N101D (AAC→GAC) | thiD | bifunctional hydroxy‑methylpyrimidine kinase and hydroxy‑phosphomethylpyrimidine kinase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (18/27); total (18/27) |
AACCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTTTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTCCGCCAGCATACC > minE/1352362‑1352493
|
aaCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTg > 1:3706205/1‑69 (MQ=255)
aaCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGa > 1:724727/1‑71 (MQ=255)
aCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGAt < 1:1017461/71‑1 (MQ=255)
aCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGAt < 1:2934513/71‑1 (MQ=255)
aCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGAt < 1:1642577/71‑1 (MQ=255)
aCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGAt < 1:1975273/71‑1 (MQ=255)
aCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGAt < 1:2867626/71‑1 (MQ=255)
aCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGAt < 1:434155/71‑1 (MQ=255)
aCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGAt < 1:2867554/71‑1 (MQ=255)
aCCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGAt < 1:2804186/71‑1 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATCACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:62307/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATATCGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:2421299/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:3719327/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:4011812/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:1433973/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:364126/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:4101569/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:52982/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:3411519/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:920225/1‑71 (MQ=255)
gTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGt > 1:3270539/1‑71 (MQ=255)
cAGCATAACGGTGTCGAGTACCACGTCTTGGAGCTGATAACGTTGCAACCGTTCTGCCACCGCTTcaacaa < 1:2898299/71‑1 (MQ=255)
aTAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATc < 1:3491330/71‑1 (MQ=255)
aTAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATc < 1:370647/71‑1 (MQ=255)
aTAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATc < 1:2719415/71‑1 (MQ=255)
aTAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATc < 1:3779709/71‑1 (MQ=255)
aTAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATc < 1:2289413/71‑1 (MQ=255)
aTAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATc < 1:2443918/71‑1 (MQ=255)
aTAACGGTGTCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATc < 1:4279277/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:3297100/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:895419/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:876364/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:1799846/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:2163143/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:440330/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:3990000/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:375265/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:3663406/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:2825438/71‑1 (MQ=255)
gtgtCGAGTACCACGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTc < 1:3063167/71‑1 (MQ=255)
aCGTCTTGGATCTGATAACGTTGCAACCGTTCTGccc > 1:2723030/1‑36 (MQ=38)
aCGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTCCGCCAGCATa > 1:2362660/1‑69 (MQ=255)
aCGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTCCGCCAGCATAcc > 1:4361849/1‑71 (MQ=255)
aCGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTCCGCCAGCATAc > 1:2219708/1‑70 (MQ=255)
aCGTCTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTCCGCCAGCATAc > 1:1493291/1‑70 (MQ=255)
|
AACCGCCGAAGGTGAAAGCAGCGGGTCGCCGCTTTTTGCCAGCATAACGGTGTCGAGTACCACGTTTTGGATCTGATAACGTTGCAACCGTTCTGCCACCGCTTCAACAATATCGGTTTCCGCCAGCATACC > minE/1352362‑1352493
|
| 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
