|
Genes: |
A |
B |
A+B |
Length: |
81 |
112 |
191 |
Sequences: |
19735 |
78738 |
16691 |
Seq/Len: |
243.64 |
703.02 |
87.39 |
MirrorTree (Pazo et al. 2001) |
0.87 |
|
|
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 |
5317 |
29.97 |
CA-VC |
Δgene:(1, 1) A:(1E-10, 8) B:(1E-40, 8) msa: HHblits (2015_06)
|
0.00 |
Done |
5310 |
63.68 |
CA-VC |
Δgene:(1, 1) A:(1E-10, 8) B:(1E-20, 1) msa: HHblits (2015_06)
|
0.00 |
Done |
5256 |
29.91 |
CA-VC |
Δgene:(1, 1) A:(1E-20, 8) B:(1E-40, 8) msa: HHblits (2015_06)
|
0.00 |
Done |
5255 |
0.01 |
CA-VC |
Δgene:(1, 1) A:(1E-20, 8) B:(1E-60, 8) msa: HHblits (2015_06)
|
|
Killed |
5254 |
0.01 |
CA-VC |
Δgene:(1, 1) A:(1E-40, 8) B:(1E-60, 8) msa: HHblits (2015_06)
|
|
Killed |
5253 |
73.84 |
CA-VC |
Δgene:(1, 1) A:(1E-20, 8) B:(1E-20, 8) msa: HHblits (2015_06)
|
0.00 |
Done |
5252 |
0.01 |
CA-VC |
Δgene:(1, 1) A:(1E-40, 8) B:(1E-40, 8) msa: HHblits (2015_06)
|
|
Killed |
5251 |
80.51 |
CA-VC |
Δgene:(1, 1) A:(1E-06, 8) B:(1E-06, 8) msa: HHblits (2015_06)
|
0.00 |
Done |
5250 |
75.52 |
CA-VC |
Δgene:(1, 1) A:(1E-10, 8) B:(1E-20, 8) msa: HHblits (2015_06)
|
0.00 |
Done |
5248 |
87.39 |
CA-VC |
Δgene:(1, 20) A:(1E-10, 8) B:(1E-20, 8) msa: HHblits (2015_06)
|
0.00 |
Done - Shared |