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 |
4,486,291 |
T→A |
I25N (ATC→AAC) |
lptF → |
lipopolysaccharide transport system protein LptF |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 4,486,291 | 0 | T | A | 100.0%
| 110.0
/ NA
| 31 | I25N (ATC→AAC) | lptF | lipopolysaccharide transport system protein LptF |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (12/19); total (12/19) |
AGTGATAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGATCTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCC > NC_000913/4486217‑4486367
|
aGTGATAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAacttctt < 1:858782/81‑1 (MQ=255)
tGATAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAacttcttct > 1:858835/1‑81 (MQ=255)
aTAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGt < 2:858782/81‑1 (MQ=255)
aTAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAg > 1:858830/1‑81 (MQ=255)
aaGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGt > 2:858837/1‑80 (MQ=255)
aGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGtt < 2:858783/80‑1 (MQ=255)
gATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAg < 2:858784/81‑1 (MQ=255)
gATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAg > 1:858829/1‑81 (MQ=255)
tatCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTg < 2:858785/81‑1 (MQ=255)
ggTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGAt > 2:858845/1‑81 (MQ=255)
gTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAg < 2:858786/77‑1 (MQ=255)
gTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGAt < 2:858787/80‑1 (MQ=255)
gCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCt > 2:858856/1‑81 (MQ=255)
cGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTc > 1:858843/1‑81 (MQ=255)
ggAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCgg < 1:858789/81‑1 (MQ=255)
cGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAg < 1:858790/81‑1 (MQ=255)
gCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGc < 1:858791/81‑1 (MQ=255)
gCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGc < 1:858793/81‑1 (MQ=255)
gCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCGTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGc < 2:858791/81‑1 (MQ=255)
cTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCTTCGGCGCAGCg > 1:858832/1‑81 (MQ=255)
aGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGAc > 2:858857/1‑81 (MQ=255)
aGCCAGCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGAc < 2:858793/81‑1 (MQ=255)
gCTGGCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGa < 1:858795/81‑1 (MQ=255)
ggCGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGatat > 2:858843/1‑81 (MQ=255)
cGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTc < 2:858796/81‑1 (MQ=255)
cGATACTCTTCATCTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTc < 1:858796/81‑1 (MQ=255)
cTTGCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGt > 2:858840/1‑81 (MQ=255)
gCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGt < 1:858798/78‑1 (MQ=255)
gCTTTTGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGt < 1:858799/78‑1 (MQ=255)
ttttGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGctct > 1:858873/1‑81 (MQ=255)
ttGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTcc > 2:858851/1‑81 (MQ=255)
tGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTcc < 2:858799/80‑1 (MQ=255)
tGAACTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTcc < 2:858800/80‑1 (MQ=255)
|
AGTGATAATCATAAGATATCTGGTGCGGGAGACGCTCAAAAGCCAGCTGGCGATACTCTTCATCTTGCTTTTGATCTTCTTCTGTCAAAAGTTAGTGAGGATCCTCGGCGCAGCGGTTGACGGCGATATTCCGGCGAATCTGGTGCTCTCC > NC_000913/4486217‑4486367
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
