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Genes: |
A |
B |
A+B |
Length: |
96 |
377 |
469 |
Sequences: |
14203 |
4910 |
172 |
Seq/Len: |
147.95 |
13.02 |
0.37 |
MirrorTree (Pazo et al. 2001) |
0.07 |
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Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
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HHblits results
Sequence A: (Date: 2013_03) 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: 2013_03) 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. |
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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 |
2040 |
0.54 |
Ig2ACTA |
Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2013_03)
|
0.00 |
Done |
2039 |
0.13 |
Ig2ACTA |
Δgene:(1, 20) A:(1E-60, 8) B:(1E-04, 8) msa: Jackhmmer (2015_03)
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Killed - Shared |
2035 |
0.37 |
Ig2ACTA |
Δgene:(1, 100) A:(1E-04, 8) B:(1E-04, 8) msa: HHblits (2013_03)
|
0.00 |
Done - Shared |
2031 |
0.08 |
Ig2ACTA |
Δgene:(1, 20) A:(1E-80, 8) B:(1E-04, 8) msa: Jackhmmer (2015_03)
|
|
Killed - Shared |
2030 |
1.3 |
Ig2ACTA |
Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2015_03)
|
0.00 |
Done - Shared |
2028 |
1.01 |
Ig2ACTA |
Δgene:(1, 100) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2015_03)
|
0.01 |
Done - Shared |
2020 |
0.43 |
Ig2ACTA |
Δgene:(1, 20) A:(1E-10, 8) B:(1E-04, 8) msa: Jackhmmer (2015_03)
|
0.00 |
Done - Shared |
2019 |
0.49 |
Ig2ACTA |
Δgene:(1, 20) A:(1E-04, 8) B:(1E-04, 8) msa: Jackhmmer (2015_03)
|
0.00 |
Done - Shared |