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Genes: |
A |
B |
A+B |
Length: |
513 |
459 |
966 |
Sequences: |
4412 |
4674 |
2656 |
Seq/Len: |
8.6 |
10.18 |
2.75 |
MirrorTree (Pazo et al. 2001) |
0.49 |
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Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
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Jackhmmer 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 Jackhmmer 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 |
4418 |
1.62 |
cIV_A_80_cI_M_60_1_human |
Δgene:(1, ∞) A:(1E-80, 8) B:(1E-60, 1) msa: Jackhmmer (2015_06)
|
0.22 |
Done - Shared |
4416 |
1.15 |
cIV_A_60_cI_M_80_1_human |
Δgene:(1, ∞) A:(1E-60, 8) B:(1E-80, 1) msa: Jackhmmer (2015_06)
|
0.33 |
Done - Shared |
4415 |
1.17 |
cIV_A_80_1_cI_M_80_1_human |
Δgene:(1, ∞) A:(1E-80, 1) B:(1E-80, 1) msa: Jackhmmer (2015_06)
|
0.30 |
Done - Shared |
4414 |
1.15 |
cIV_A_80_cI_M_80_1_human |
Δgene:(1, ∞) A:(1E-80, 8) B:(1E-80, 1) msa: Jackhmmer (2015_06)
|
0.38 |
Done - Shared |
4413 |
1.62 |
cIV_A_60_cI_M_60_1_human |
Δgene:(1, ∞) A:(1E-60, 8) B:(1E-60, 1) msa: Jackhmmer (2015_06)
|
0.17 |
Done - Shared |
4408 |
2.75 |
cIV_A_20_cI_M_20_1_human |
Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 1) msa: Jackhmmer (2015_06)
|
0.02 |
Done - Shared |
4405 |
3.06 |
cIV_A_4_cI_M_4_1_human |
Δgene:(1, ∞) A:(1E-04, 8) B:(1E-04, 1) msa: Jackhmmer (2015_06)
|
0.05 |
Done - Shared |
4398 |
2.38 |
cIV_A_40_cI_M_40_1_human |
Δgene:(1, ∞) A:(1E-40, 8) B:(1E-40, 1) msa: Jackhmmer (2015_06)
|
0.04 |
Done - Shared |