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 |
|
A3 F1 I1 R1
|
502 |
34.8 |
1912488 |
98.2% |
1878063 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
2,973,077 |
T→C |
V262V (GTA→GTG) |
lplT ← |
lysophospholipid transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 2,973,077 | 0 | T | C | 100.0%
| 165.7
/ NA
| 46 | V262V (GTA→GTG) | lplT | lysophospholipid transporter |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/25); total (21/25) |
GCTGGCATACAGCGTGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCTACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTACCCACAGCACCAAC > NC_000913/2973000‑2973149
|
gCTGGCATACAGCGTGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCAc > 2:539826/1‑80 (MQ=255)
cTGGCATACAGCGTGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGccacca > 2:539809/1‑81 (MQ=255)
tGGCATACAGCGTGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCAt > 1:539820/1‑81 (MQ=255)
ggCATACAGCGTGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATc > 2:539821/1‑81 (MQ=255)
ggCATACAGCGTGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATc > 2:539825/1‑81 (MQ=255)
tACAGCGTGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGt < 2:539757/81‑1 (MQ=255)
cAGCGTGACACTGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTTCTCCAACCACGATACCAATCGCCACCATCGCGttt > 2:539818/1‑80 (MQ=255)
gCGTGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTgag < 1:539758/81‑1 (MQ=255)
tGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATa < 1:539759/81‑1 (MQ=255)
gACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAg > 2:539813/1‑81 (MQ=255)
gACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAg > 1:539827/1‑81 (MQ=255)
acGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTg > 2:539830/1‑81 (MQ=255)
acGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTg > 1:539815/1‑81 (MQ=255)
tttCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCg < 2:539760/81‑1 (MQ=255)
tCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGt < 1:539761/80‑1 (MQ=255)
cAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGc < 1:539762/81‑1 (MQ=255)
aGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCg < 1:539763/81‑1 (MQ=255)
cataactaacTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGAGCGTAGCGtt < 2:539764/79‑1 (MQ=255)
taactaacTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTAt > 1:539812/1‑81 (MQ=255)
aactaactTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATc > 1:539838/1‑81 (MQ=255)
actaactTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATc < 1:539765/80‑1 (MQ=255)
ctaactTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCgg > 2:539831/1‑81 (MQ=255)
ctaactTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCgg > 2:539836/1‑81 (MQ=255)
ctaactTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCgg < 1:539766/81‑1 (MQ=255)
aactTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGt > 1:539814/1‑80 (MQ=255)
actTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTa < 1:539767/80‑1 (MQ=255)
actTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTa < 2:539768/80‑1 (MQ=255)
cGCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATg < 2:539769/79‑1 (MQ=255)
gCTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGcc < 2:539770/80‑1 (MQ=255)
cTGCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCa < 2:539771/81‑1 (MQ=255)
gCCGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAgc > 1:539823/1‑81 (MQ=255)
ccGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAgcg < 2:539772/81‑1 (MQ=255)
ccGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAgc < 2:539774/80‑1 (MQ=255)
ccGCACCTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAg < 1:539773/79‑1 (MQ=255)
aCCTGCGCCAACCACGATACCAATCGCCACCATCACGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCAc < 1:539775/81‑1 (MQ=255)
ccTGCGCCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCAcc > 1:539840/1‑81 (MQ=255)
gcgcCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCgg > 1:539824/1‑80 (MQ=255)
gcCAACCACGATACCAATCGCCACCATCGCGTTTAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGTTAc > 1:539841/1‑81 (MQ=255)
gcCAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTAc < 1:539776/81‑1 (MQ=255)
cAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTAccc < 1:539778/81‑1 (MQ=255)
cAACCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTAccc < 2:539777/81‑1 (MQ=255)
aaCCACGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTACCca < 2:539779/81‑1 (MQ=255)
ccACGATACCAATCGCCACTATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTACCca > 1:539833/1‑79 (MQ=255)
cGATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTACCCACAGCa > 1:539804/1‑81 (MQ=255)
gATACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTACCCACAGCAc > 1:539851/1‑81 (MQ=255)
tACCAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTACCCACAGCACCa < 1:539780/81‑1 (MQ=255)
ccAATCGCCACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTACCCACAGCACCAAc < 2:539781/81‑1 (MQ=255)
|
GCTGGCATACAGCGTGACACGGTTTCCAGCGTAACTAACTTCGCTGCCGCACCTGCGCCAACCACGATACCAATCGCTACCATCGCGTTGAGATAGGTGGGCGTAGCGTTATCGGTAATGCCCAGCGCCACCGGTACCCACAGCACCAAC > NC_000913/2973000‑2973149
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
