|
Genes: |
A |
B |
A+B |
Length: |
545 |
592 |
1137 |
Sequences: |
369 |
297 |
1 |
Seq/Len: |
0.68 |
0.5 |
0 |
|
|
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 |
11311 |
0 |
IpaH-GBP1_complexCoEv |
Δgene:(1, 1) A:(1E-02, 8) B:(1E-02, 8) msa: HHblits (2015_06)
|
|
Killed - Shared |
11310 |
0 |
IpaH-GBP1_complexCoEv |
Δgene:(1, 100) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06)
|
|
Killed - Shared |
11309 |
0 |
IpaH-GBP1_complexCoEv |
Δgene:(1, 10) A:(1E-02, 8) B:(1E-02, 8) msa: HHblits (2015_06)
|
|
Killed - Shared |
11307 |
0 |
IpaH-GBP1_complexCoEv |
Δgene:(1, 20) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06)
|
|
Killed - Shared |
11280 |
0 |
IpaH-GBP1_complexCoEv |
Δgene:(1, 20) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06)
|
|
Killed - Shared |