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Genes: |
A |
B |
A+B |
Length: |
252 |
200 |
441 |
Sequences: |
4089 |
2148 |
881 |
Seq/Len: |
16.23 |
10.74 |
2 |
MirrorTree (Pazo et al. 2001) |
0.50 |
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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 |
3238 |
0.58 |
cIV_B_40_cI_J_60_Pdenitr |
Δgene:(1, ∞) A:(1E-40, 8) B:(1E-60, 8) msa: Jackhmmer (2015_06)
|
0.00 |
Done - Shared |
3237 |
0.92 |
cIV_B_40_cI_J_40_Pdenitr |
Δgene:(1, ∞) A:(1E-60, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06)
|
0.04 |
Done - Shared |
3236 |
0.99 |
cIV_B_40_cI_J_40_Pdenitr |
Δgene:(1, ∞) A:(1E-40, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06)
|
0.31 |
Done - Shared |
3235 |
2.02 |
cIV_B_40_cI_J_10_Pdenitr |
Δgene:(1, ∞) A:(1E-40, 8) B:(1E-10, 8) msa: Jackhmmer (2015_06)
|
0.13 |
Done - Shared |
3234 |
2 |
cIV_B_40_cI_J_20_Pdenitr |
Δgene:(1, ∞) A:(1E-40, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06)
|
0.14 |
Done - Shared |
3233 |
1.1 |
cIV_B_20_cI_J_40_Pdenitr |
Δgene:(1, ∞) A:(1E-20, 8) B:(1E-40, 8) msa: Jackhmmer (2015_06)
|
0.07 |
Done - Shared |
3232 |
2.3 |
cIV_B_20_cI_J_20_Pdenitr |
Δgene:(1, ∞) A:(1E-20, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06)
|
0.12 |
Done - Shared |
3231 |
2.3 |
cIV_B_4_cI_J_20_Pdenitr |
Δgene:(1, ∞) A:(1E-04, 8) B:(1E-20, 8) msa: Jackhmmer (2015_06)
|
0.05 |
Done - Shared |