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
|
690 |
31.8 |
1836723 |
97.1% |
1783458 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
4,486,821 |
T→C |
S202P (TCC→CCC) |
lptF → |
lipopolysaccharide transport system protein LptF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,486,821 | 0 | T | C | 100.0%
| 145.3
/ NA
| 41 | S202P (TCC→CCC) | lptF | lipopolysaccharide transport system protein LptF |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (19/22); total (19/22) |
AATTCGACCAAAAGGTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCTCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGCATTACGGACT > NC_000913/4486745‑4486896
|
aaTTCGACCAAAAGGTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGcccc > 2:858989/1‑79 (MQ=255)
aaTTCGACCAAAAGGTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGcccc > 2:858984/1‑79 (MQ=255)
aTTCGACCAAAAGGTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAg < 1:858928/81‑1 (MQ=255)
tCGACCAAAAGGTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGgt > 2:859007/1‑81 (MQ=255)
gACCAAAAGGTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGgtc < 2:858928/80‑1 (MQ=255)
aCCAAAAGGTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGgtcgt < 2:858929/81‑1 (MQ=255)
aGGTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCActct < 2:858930/81‑1 (MQ=255)
ggTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCActct > 1:858989/1‑80 (MQ=255)
aaTGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAAc > 1:858991/1‑81 (MQ=255)
aaTGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAAc > 1:858987/1‑81 (MQ=255)
aTGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAAc > 2:859002/1‑80 (MQ=255)
tGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCa < 1:858932/81‑1 (MQ=255)
gTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGaa > 1:859000/1‑81 (MQ=255)
tCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAAc < 2:858932/81‑1 (MQ=255)
tCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACgcgc > 1:858999/1‑81 (MQ=255)
gtggtggtgGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTc > 2:858995/1‑81 (MQ=255)
tggtggtggCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCt < 2:858933/78‑1 (MQ=255)
ggtggtggCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCg > 1:859009/1‑80 (MQ=255)
gtggCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAgg < 2:858935/80‑1 (MQ=255)
gtggCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGc < 1:858935/81‑1 (MQ=255)
gtggCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGc < 1:858937/81‑1 (MQ=255)
tggCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCa < 1:858938/81‑1 (MQ=255)
gCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCAc < 2:858938/80‑1 (MQ=255)
ccGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTg > 1:858981/1‑81 (MQ=255)
ccGATTCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTg > 2:859009/1‑81 (MQ=255)
ttCCGGACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCAtt < 1:858940/81‑1 (MQ=255)
gACATTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTAc < 1:858941/81‑1 (MQ=255)
aTTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTAtgtg < 2:858941/81‑1 (MQ=255)
aTTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGt > 2:859018/1‑80 (MQ=255)
aTTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGt > 1:859018/1‑80 (MQ=255)
aTTTAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTg < 1:858943/81‑1 (MQ=255)
tttAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGa > 1:859028/1‑81 (MQ=255)
tAACCCAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGAt < 1:858944/80‑1 (MQ=255)
aCCCAGCTGCGCGTCGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGAttt < 1:858945/80‑1 (MQ=255)
cccAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTcc < 1:858946/81‑1 (MQ=255)
cAGCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGc < 1:858947/81‑1 (MQ=255)
gCTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGCAt > 2:859021/1‑81 (MQ=255)
cTGCGCGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGCAt > 1:859024/1‑80 (MQ=255)
gcgcGACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGCATTAc > 2:859006/1‑81 (MQ=255)
cgcgACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGCATTAc < 1:858948/80‑1 (MQ=255)
gcgACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGCATTACg > 2:859013/1‑80 (MQ=255)
gACGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGCATTACGGAc < 1:858949/81‑1 (MQ=255)
aCGGCCCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGCATTACGGACt > 1:858998/1‑81 (MQ=255)
|
AATTCGACCAAAAGGTAATGCACGTCCTTCTGTGGTGGTGGCCGATTCCGGACATTTAACCCAGCTGCGCGACGGCTCCCAGGTCGTCACTCTCAACCAGGGAACGCGCTTCGAAGGCACTGCATTGTTACGTGATTTCCGCATTACGGACT > NC_000913/4486745‑4486896
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
