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 |
3,460,788 |
C→T |
F324F (TTC→TTT) |
gspF → |
Type II secretion system protein GspF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,460,788 | 0 | C | T | 100.0%
| 131.2
/ NA
| 36 | F324F (TTC→TTT) | gspF | Type II secretion system protein GspF |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (18/18); total (18/18) |
CCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCA > NC_000913/3460710‑3460863
|
ccAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTtcc < 1:594285/81‑1 (MQ=255)
aGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTccgc < 2:594285/81‑1 (MQ=255)
gCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTccgcc < 2:594286/81‑1 (MQ=255)
cGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTccgccg < 1:594288/81‑1 (MQ=255)
gTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCga > 2:594338/1‑81 (MQ=255)
gTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCga > 2:594328/1‑81 (MQ=255)
cTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCgat > 2:594326/1‑80 (MQ=255)
gCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGatgatg < 2:594288/81‑1 (MQ=255)
cAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTAATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGc < 1:594290/81‑1 (MQ=255)
aaaTGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGct < 2:594290/81‑1 (MQ=255)
aaTGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGctc > 1:594352/1‑81 (MQ=255)
aTGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGctct < 2:594291/81‑1 (MQ=255)
cGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTAc < 1:594293/80‑1 (MQ=255)
gCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACAtg < 2:594293/81‑1 (MQ=255)
gagaACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACAtgttg > 2:594359/1‑81 (MQ=255)
gagaACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACAtggtg > 1:594342/1‑81 (MQ=255)
gaACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGc > 2:594352/1‑81 (MQ=255)
gaACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGc > 2:594331/1‑81 (MQ=255)
aaCGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGcc > 2:594357/1‑81 (MQ=255)
gTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCctct > 1:594330/1‑81 (MQ=255)
gTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCctct > 2:594343/1‑81 (MQ=255)
tCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTgg > 1:594337/1‑81 (MQ=255)
cGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGc > 2:594346/1‑81 (MQ=255)
gCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGc > 1:594348/1‑80 (MQ=255)
aGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGaaa < 1:594295/81‑1 (MQ=255)
gggTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGaaaa < 1:594296/81‑1 (MQ=255)
aCAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGc < 2:594296/80‑1 (MQ=255)
cAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCgg > 1:594341/1‑81 (MQ=255)
tCATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCt > 2:594356/1‑81 (MQ=255)
cATCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCt < 1:594298/80‑1 (MQ=255)
aTCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTc < 2:594298/80‑1 (MQ=255)
aTCTTTCGCTGGAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCg > 1:594376/1‑81 (MQ=255)
gAACAAACCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTaa < 2:594299/79‑1 (MQ=255)
aaCCGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGt > 1:594367/1‑78 (MQ=255)
ccGCAATTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCagag < 2:594300/81‑1 (MQ=255)
aaTTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGc < 1:594302/81‑1 (MQ=255)
aTTTTTCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCa < 2:594302/81‑1 (MQ=255)
ttttCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCg > 2:594350/1‑77 (MQ=255)
ttttCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCg > 2:594354/1‑77 (MQ=255)
|
CCAGCGTCTGGCAAATGCGGCAGAGAACGTTCGCCAGGGTAACAGCATTCATCTTTCGCTGGAACAAACCGCAATTTTCCCGCCGATGATGCTCTACATGGTGGCCTCTGGCGAAAAAAGCGGGCAGCTCGGCACATTAATGGTCAGAGCCGCA > NC_000913/3460710‑3460863
|
| 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
