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 F1 I1 R1
|
315 |
33.5 |
1889570 |
98.7% |
1865005 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,324,004 |
G→A |
P117S (CCG→TCG) |
phnD ← |
phosphonate ABC transporter periplasmic binding protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,324,004 | 0 | G | A | 100.0%
| 151.4
/ NA
| 41 | P117S (CCG→TCG) | phnD | phosphonate ABC transporter periplasmic binding protein |
| Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (24/17); total (24/17) |
TCCGCTTCGCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGGCGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCATCGCCGACAGATT > NC_000913/4323929‑4324079
|
tCCGCTTCGCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACg < 2:863942/78‑1 (MQ=255)
cTTCGCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGatccatc > 2:864003/1‑81 (MQ=255)
cTTCGCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGatccatc > 2:863990/1‑81 (MQ=255)
tCGCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATccg > 2:864017/1‑81 (MQ=255)
tCGCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATccg > 1:863996/1‑81 (MQ=255)
cGCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGatccatcc < 2:863943/79‑1 (MQ=255)
cGCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATccgc > 1:864026/1‑81 (MQ=255)
gCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATccgcc > 2:863992/1‑81 (MQ=255)
gCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATccgcc < 1:863944/81‑1 (MQ=255)
gCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGAACAACACGCTCCAGTAACCCGACGATCCATccgc < 2:863945/80‑1 (MQ=255)
agATCGTTCAGGTTGTTGATCGGACTGTCTTAGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGAcc < 2:863946/81‑1 (MQ=255)
aTCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGt > 1:864015/1‑81 (MQ=255)
cGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCt > 1:864010/1‑81 (MQ=255)
gTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTg > 2:864027/1‑81 (MQ=255)
ttCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTgg < 1:863947/81‑1 (MQ=255)
cAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGc > 2:863995/1‑81 (MQ=255)
aGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCg < 2:863948/81‑1 (MQ=255)
ttgttgATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAg < 2:863949/81‑1 (MQ=255)
gttgATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGAc > 1:864006/1‑81 (MQ=255)
ttgATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGAc < 2:863950/80‑1 (MQ=255)
gATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTg > 1:864005/1‑81 (MQ=255)
aTCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTgg < 2:863951/81‑1 (MQ=255)
tCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGc > 2:864013/1‑81 (MQ=255)
ggACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCa > 2:864031/1‑81 (MQ=255)
gACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCAt > 2:864001/1‑81 (MQ=255)
tgACGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCa > 2:864029/1‑81 (MQ=255)
aCGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCAcc < 2:863952/81‑1 (MQ=255)
aCGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCAcc < 2:863954/81‑1 (MQ=255)
aCGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCAcc < 1:863953/81‑1 (MQ=255)
aCGATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCAcc > 2:864020/1‑81 (MQ=255)
gATCAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGc > 1:864016/1‑81 (MQ=255)
cAACACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTc > 2:863955/1‑81 (MQ=255)
aaCACGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTc < 1:863956/80‑1 (MQ=255)
acacGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCa > 2:864009/1‑81 (MQ=255)
acGCTCCAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCATc > 2:864036/1‑81 (MQ=255)
cAGTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCATCGCCg < 2:863957/79‑1 (MQ=255)
gTAACCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCATCGCCGACAg < 2:863958/81‑1 (MQ=255)
aaCCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCATCGCCGACAGAt > 1:864011/1‑81 (MQ=255)
aaCCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCATCGCCGACAGAt > 1:864019/1‑81 (MQ=255)
aCCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCATCGCCGACAGAtt < 2:863959/81‑1 (MQ=255)
aCCCGACGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCATCGCCGACAGAtt > 1:864028/1‑81 (MQ=255)
|
TCCGCTTCGCCAGCAGATCGTTCAGGTTGTTGATCGGACTGTCTTTGTTGACGATCAACACGCTCCAGTAACCCGGCGATCCATCCGCCGCGACCGTCTGGGCGAAGACCTGGCCATTGGCGCGATCCACCGCTTCCATCGCCGACAGATT > NC_000913/4323929‑4324079
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
