|
| Genes: |
A |
B |
A+B |
| Length: |
141 |
239 |
378 |
| Sequences: |
4093 |
128 |
8 |
| Seq/Len: |
29.03 |
0.54 |
0.02 |
|
|
Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
|
|
HHblits results
Sequence A: (Date: 2015_06) BEFORE and AFTER the coverage filter was applied, to remove sequences that don't cover at least 75% of query length. Regions above red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len.
Sequence B: (Date: 2015_06) BEFORE and AFTER the coverage filter was applied, to remove sequences that don't cover at least 75% of query length. Regions above red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len.
[Show HHblits results] - Maybe useful in deciding what regions to trim. |
|
| Figure 1: The effect of Δgene on ratio of paralogs in the genome for each gene, and the number of sequences in the resulting joined alignment.
| Figure 2: Distribution of Δgene across all genomes. |
Figure 3: Current parameters. You can use the form to adjust the parameters and resubmit the job! |
| ID |
Seq/Len |
Name |
Options |
I_Prob |
Status |
| 10530 |
18.75 |
ExbD-TonB |
Δgene:(1, ∞) A:(1E-20, 8) B:(1E-10, 8) msa: Jackhmmer (r132)
|
0.10 |
Done |
| 10528 |
11.86 |
ExbD-TonB |
Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (r132)
|
0.00 |
Done |
| 10526 |
0.22 |
ExbD-TonB |
Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06)
|
0.00 |
Done |
| 8585 |
21.61 |
Dale 6-20 |
Δgene:(1, 20) A:(1E-06, 8) B:(1E-06, 8) msa: Jackhmmer (r132)
|
0.60 |
Done - Shared |
| 8568 |
19.56 |
DT gene 8, -6 jack |
Δgene:(1, ∞) A:(1E-20, 8) B:(1E-06, 8) msa: Jackhmmer (r132)
|
0.40 |
Done - Shared |
| 8566 |
0.22 |
DT gene 8 -6 |
Δgene:(1, ∞) A:(1E-20, 8) B:(1E-06, 8) msa: HHblits (2015_06)
|
0.00 |
Done - Shared |
| 8565 |
0.02 |
DT -6 |
Δgene:(1, 20) A:(1E-20, 8) B:(1E-06, 8) msa: HHblits (2015_06)
|
|
Killed - Shared |
| 8564 |
0.02 |
DT gene 100 |
Δgene:(1, 100) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06)
|
|
Killed - Shared |
| 8563 |
16.31 |
DT -10 Jack |
Δgene:(1, 20) A:(1E-20, 8) B:(1E-10, 8) msa: Jackhmmer (r132)
|
0.45 |
Done - Shared |
| 8562 |
0.02 |
DT -10 |
Δgene:(1, 20) A:(1E-20, 8) B:(1E-10, 8) msa: HHblits (2015_06)
|
|
Killed - Shared |
| 8561 |
17.39 |
Dale |
Δgene:(1, 20) A:(1E-20, 8) B:(1E-06, 8) msa: Jackhmmer (r132)
|
0.61 |
Done - Shared |
| 7825 |
9.5 |
DT |
Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (r132)
|
0.18 |
Done - Shared |
| 7822 |
0.02 |
DT |
Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06)
|
|
Killed - Shared |