# RSAT - matrix-clustering result

### Analysis: wt_top1 (30/05/2025 14:03)

## Results Summary

Nb Input motifs | Nb Input collections | Nb Clusters Found | Download Root motifs | Complete results [zip] | Parameters used
Linkage method | Similarity metric | Thresholds to partition the tree
32 | 1 | 30 | Download | Download |
average | cor | Ncor = 0.4 cor = 0.6

| Logo Forest (dynamic browsing) Logo Forest (rapid overview - low image quality) cluster_1 cluster_2 cluster_3 cluster_4 cluster_5 cluster_6 cluster_7 cluster_8 cluster_9 cluster_10 cluster_11 cluster_12 cluster_13 cluster_14 cluster_15 cluster_16 cluster_17 cluster_18 cluster_19 cluster_20 cluster_21 cluster_22 cluster_23 cluster_24 cluster_25 cluster_26 cluster_27 cluster_28 cluster_29 cluster_30
Clusters Summary ## Clusters Summary Table
Root Motif | Root Motif (Reverse) | Cluster ID | # Motifs | Motif_Name::Collection | Number of Motifs by Collection | Root Motif (transfac Format)
--- | --- | --- | --- | --- | --- | ---
| cluster_1 | 1 | homer_23.AGTCTGAACA::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_2 | 1 | homer_30.AATTAGTC::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_3 | 1 | homer_11.GTGAGTGGACCA::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_4 | 1 | homer_19.TCTGGTGAGT::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_5 | 1 | homer_20.CAATCGCG::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_6 | 1 | homer_2.RAGTTCCGCGSG::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_7 | 1 | homer_31.CACGGGAC::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_8 | 1 | homer_3.CCCGTGTGGGCC::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_9 | 1 | homer_26.TGTGTATTCCAC::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_10 | 1 | homer_7.GYCATTGTKAAT::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_11 | 1 | homer_12.CCAATCCAAT::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_12 | 1 | homer_4.GGGCACSAVTCC::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_13 | 1 | homer_10.GCAGAGTCTT::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_14 | 1 | homer_27.NNCTTGGTCCGN::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_15 | 1 | homer_24.GAGGACAGGT::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_16 | 1 | homer_5.CCAAAAACCTCT::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_17 | 1 | homer_32.AGTWYCTATTCT::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_18 | 1 | homer_9.AGGAATTTAGKM::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_19 | 2 | homer_14.ARGCACDGYG::wt_top1:: homer_29.TAAGCCACAG::wt_top1:: | wt_top1::2_motifs | Show matrix
|  | cluster_20 | 1 | homer_1.GGTAGCCGGCTD::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_21 | 1 | homer_25.CCCGGCTCGGGA::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_22 | 2 | homer_13.TGTRCCSCAGWY::wt_top1:: homer_8.GTCTGGCGCA::wt_top1:: | wt_top1::2_motifs | Show matrix
|  | cluster_23 | 1 | homer_21.TCYGGWCCGGAN::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_24 | 1 | homer_22.GAAYAGGTGAGA::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_25 | 1 | homer_16.CCGGGCTACTTG::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_26 | 1 | homer_17.GACMGCTKCT::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_27 | 1 | homer_18.GAACCAGACAGC::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_28 | 1 | homer_15.CTCGAGTCGMGM::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_29 | 1 | homer_6.WACACCCRYAMR::wt_top1 | wt_top1 : 1 motif | Show matrix
|  | cluster_30 | 1 | homer_28.CTTAGAATCCAG::wt_top1 | wt_top1 : 1 motif | Show matrix

- Note: by default the table displays the first 50 clusters. Click on the Show X entries button to display more (or less) clusters.
- Click on the column names to change the order of the data.
- Use the Search window to find your motif (s) of interest.

Individual Cluster View

## Individual Cluster View

Show All
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cluster_1
cluster_2
cluster_3
cluster_4
cluster_5
cluster_6
cluster_7
cluster_8
cluster_9
cluster_10
cluster_11
cluster_12
cluster_13
cluster_14
cluster_15
cluster_16
cluster_17
cluster_18
cluster_19
cluster_20
cluster_21
cluster_22
cluster_23
cluster_24
cluster_25
cluster_26
cluster_27
cluster_28
cluster_29
cluster_30
Display Logo Trees
cluster_1
cluster_2
cluster_3
cluster_4
cluster_5
cluster_6
cluster_7
cluster_8
cluster_9
cluster_10
cluster_11
cluster_12
cluster_13
cluster_14
cluster_15
cluster_16
cluster_17
cluster_18
cluster_19
cluster_20
cluster_21
cluster_22
cluster_23
cluster_24
cluster_25
cluster_26
cluster_27
cluster_28
cluster_29
cluster_30
Display Branch-Motifs
cluster_1

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | A G T C T G A A C A |  |  | wt_top1 : 1 motif | PSSM | 13.76 | 100

cluster_2

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | A A T T A G T C |  |  | wt_top1 : 1 motif | PSSM | 3.57 | 100

cluster_3

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | G T G A G T G G A C C A |  |  | wt_top1 : 1 motif | PSSM | 12.88 | 100

cluster_4

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | T C T G G T G A G T |  |  | wt_top1 : 1 motif | PSSM | 13.76 | 100

cluster_5

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | C A A T C G C G |  |  | wt_top1 : 1 motif | PSSM | 3.57 | 100

cluster_6

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | R A G T T C C G C G S G |  |  | wt_top1 : 1 motif | PSSM | 6.74 | 101

cluster_7

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | C A C G G G A C |  |  | wt_top1 : 1 motif | PSSM | 3.57 | 100

cluster_8

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | C C C G T G T G G G C C |  |  | wt_top1 : 1 motif | PSSM | 11.36 | 100

cluster_9

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | T G T G T A T T C C A C |  |  | wt_top1 : 1 motif | PSSM | 7.81 | 101

cluster_10

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | G Y C A T T G T K A A T |  |  | wt_top1 : 1 motif | PSSM | 12.08 | 101

cluster_11

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | C C A A T C C A A T |  |  | wt_top1 : 1 motif | PSSM | 13.81 | 100

cluster_12

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | G G G C A C S A V T C C |  |  | wt_top1 : 1 motif | PSSM | 6.67 | 101

cluster_13

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | G C A G A G T C T T |  |  | wt_top1 : 1 motif | PSSM | 13.26 | 100

cluster_14

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | N N C T T G G T C C G N |  |  | wt_top1 : 1 motif | PSSM | 2.24 | 100

cluster_15

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | G A G G A C A G G T |  |  | wt_top1 : 1 motif | PSSM | 4.46 | 100

cluster_16

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | C C A A A A A C C T C T |  |  | wt_top1 : 1 motif | PSSM | 14.57 | 100

cluster_17

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | A G T W Y C T A T T C T |  |  | wt_top1 : 1 motif | PSSM | 13.55 | 100

cluster_18

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | A G G A A T T T A G K M |  |  | wt_top1 : 1 motif | PSSM | 7.93 | 101

cluster_19

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Node 1 | T A A R c C A C A G y G |  |  | wt_top1::2_motifs | PSSM | 10.48 | 100

cluster_20

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | G G T A G C C G G C T D |  |  | wt_top1 : 1 motif | PSSM | 12.77 | 100

cluster_21

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | C C C G G C T C G G G A |  |  | wt_top1 : 1 motif | PSSM | 15.57 | 100

cluster_22

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Node 1 | R T C T G s s G Y A C A |  |  | wt_top1::2_motifs | PSSM | 12.16 | 100

cluster_23

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | T C Y G G W C C G G A N |  |  | wt_top1 : 1 motif | PSSM | 7.18 | 101

cluster_24

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | G A A Y A G G T G A G A |  |  | wt_top1 : 1 motif | PSSM | 12.14 | 100

cluster_25

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | C C G G G C T A C T T G |  |  | wt_top1 : 1 motif | PSSM | 13.56 | 100

cluster_26

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | G A C M G C T K C T |  |  | wt_top1 : 1 motif | PSSM | 12.48 | 100

cluster_27

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | G A A C C A G A C A G C |  |  | wt_top1 : 1 motif | PSSM | 12.65 | 100

cluster_28

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | C T C G A G T C G M G M |  |  | wt_top1 : 1 motif | PSSM | 9.26 | 101

cluster_29

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | W A C A C C C R Y A M R |  |  | wt_top1 : 1 motif | PSSM | 13.18 | 100

cluster_30

## Branch Motifs
Node | Consensus | Logo | Logo (Reverse) | Collections | Matrix (Transfac format) | IC | Nb sites
--- | --- | --- | --- | --- | --- | --- | ---
Singleton | C T T A G A A T C C A G |  |  | wt_top1 : 1 motif | PSSM | 14.07 | 100

- Each cluster has a different color.
- Click on the upper buttons to display separately the information of each cluster.
- Click on the circles at each tree to display its corresponding merged motifs.

### Definitions

- Logo tree.
  This results shows the hierarchical tree with its logo alignment of one cluster.
  The logos are shown in Forward (left logo) and Reverse (right logo) orientation.
- Branch-motifs.
  On the trees are displayed the branch number that is the number in which the motifs were incorporated in the tree.
  The Branch-Motifs table shows the logo in both orientations and the link to the file in TRANSFAC format with the branch-motif.

Individual Motif View ## Individual Motif View
Motif id | Motif name | Cluster | Collection | Width | IC | Number of sites | Consensus | Consensus (Rev) | Logo | Logo (Rev)
--- | --- | --- | --- | --- | --- | --- | --- | --- | --- | ---
wt_top1_m28_homer_28.CTTAGAATCCAG | homer_28.CTTAGAATCCAG | cluster_30 | wt_top1 | 12 | 14.07 | 100 | C T T A g A A T C C A G | C T G G A T T C T A A G |  |
wt_top1_m2_homer_2.RAGTTCCGCGSG | homer_2.RAGTTCCGCGSG | cluster_6 | wt_top1 | 12 | 6.74 | 101 | r A G T T C s r c G s G | C S C G Y S G A A C T Y |  |
wt_top1_m21_homer_21.TCYGGWCCGGAN | homer_21.TCYGGWCCGGAN | cluster_23 | wt_top1 | 12 | 7.18 | 101 | k C y g G w C c r G A s | S T C Y G G W C C R G M |  |
wt_top1_m15_homer_15.CTCGAGTCGMGM | homer_15.CTCGAGTCGMGM | cluster_28 | wt_top1 | 12 | 9.26 | 101 | C T C G A s w C k m G m | K C K M G W S T C G A G |  |
wt_top1_m13_homer_13.TGTRCCSCAGWY | homer_13.TGTRCCSCAGWY | cluster_22 | wt_top1 | 12 | 13.51 | 100 | R W C T G S G G Y A C A | T G T r C C s C A G w y |  |
wt_top1_m12_homer_12.CCAATCCAAT | homer_12.CCAATCCAAT | cluster_11 | wt_top1 | 10 | 13.81 | 100 | C C A A T C C A A T | A T T G G A T T G G |  |
wt_top1_m23_homer_23.AGTCTGAACA | homer_23.AGTCTGAACA | cluster_1 | wt_top1 | 10 | 13.76 | 100 | A G T C T G A A C A | T G T T C A G A C T |  |
wt_top1_m27_homer_27.NNCTTGGTCCGN | homer_27.NNCTTGGTCCGN | cluster_14 | wt_top1 | 12 | 2.24 | 100 | r t c t t g g t c c s g | C S G G A C C A A G A Y |  |
wt_top1_m24_homer_24.GAGGACAGGT | homer_24.GAGGACAGGT | cluster_15 | wt_top1 | 10 | 4.46 | 100 | G A G G A C A G G T | A C C T G T C C T C |  |
wt_top1_m22_homer_22.GAAYAGGTGAGA | homer_22.GAAYAGGTGAGA | cluster_24 | wt_top1 | 12 | 12.14 | 100 | G A m y A G G T G A G A | T C T C A C C T R K T C |  |
wt_top1_m30_homer_30.AATTAGTC | homer_30.AATTAGTC | cluster_2 | wt_top1 | 8 | 3.57 | 100 | A A T T A G T C | G A C T A A T T |  |
wt_top1_m10_homer_10.GCAGAGTCTT | homer_10.GCAGAGTCTT | cluster_13 | wt_top1 | 10 | 13.26 | 100 | G C A G A G T C T T | A A G A C T C T G C |  |
wt_top1_m4_homer_4.GGGCACSAVTCC | homer_4.GGGCACSAVTCC | cluster_12 | wt_top1 | 12 | 6.67 | 101 | s k G C m m s a v T C Y | R G A B T S K K G C M S |  |
wt_top1_m17_homer_17.GACMGCTKCT | homer_17.GACMGCTKCT | cluster_26 | wt_top1 | 10 | 12.48 | 100 | G A C m G C T k C T | A G M A G C K G T C |  |
wt_top1_m26_homer_26.TGTGTATTCCAC | homer_26.TGTGTATTCCAC | cluster_9 | wt_top1 | 12 | 7.81 | 101 | T G T r t A k T C C A C | G T G G A M T A Y A C A |  |
wt_top1_m1_homer_1.GGTAGCCGGCTD | homer_1.GGTAGCCGGCTD | cluster_20 | wt_top1 | 12 | 12.77 | 100 | G G w R G C m k G C T d | H A G C M K G C Y W C C |  |
wt_top1_m7_homer_7.GYCATTGTKAAT | homer_7.GYCATTGTKAAT | cluster_10 | wt_top1 | 12 | 12.08 | 101 | G y C A T T G T d a A T | A T T H A C A A T G R C |  |
wt_top1_m20_homer_20.CAATCGCG | homer_20.CAATCGCG | cluster_5 | wt_top1 | 8 | 3.57 | 100 | C A A T C G C G | C G C G A T T G |  |
wt_top1_m25_homer_25.CCCGGCTCGGGA | homer_25.CCCGGCTCGGGA | cluster_21 | wt_top1 | 12 | 15.57 | 100 | C C C G G C T y G G G A | T C C C R A G C C G G G |  |
wt_top1_m6_homer_6.WACACCCRYAMR | homer_6.WACACCCRYAMR | cluster_29 | wt_top1 | 12 | 13.18 | 100 | w A C A C C C r y A m r | Y K T R Y G G G T G T W |  |
wt_top1_m14_homer_14.ARGCACDGYG | homer_14.ARGCACDGYG | cluster_19 | wt_top1 | 12 | 6.12 | 101 | ++r r g C r C d G y G | C R C H G Y G C Y Y++ |  |
wt_top1_m18_homer_18.GAACCAGACAGC | homer_18.GAACCAGACAGC | cluster_27 | wt_top1 | 12 | 12.65 | 100 | G A A C C A G A C A G C | G C T G T C T G G T T C |  |
wt_top1_m3_homer_3.CCCGTGTGGGCC | homer_3.CCCGTGTGGGCC | cluster_8 | wt_top1 | 12 | 11.36 | 100 | C C y g T G T G G r C C | G G Y C C A C A C R G G |  |
wt_top1_m19_homer_19.TCTGGTGAGT | homer_19.TCTGGTGAGT | cluster_4 | wt_top1 | 10 | 13.76 | 100 | T C T G G T G A G T | A C T C A C C A G A |  |
wt_top1_m16_homer_16.CCGGGCTACTTG | homer_16.CCGGGCTACTTG | cluster_25 | wt_top1 | 12 | 13.56 | 100 | C C S G G C T A C y T G | C A R G T A G C C S G G |  |
wt_top1_m8_homer_8.GTCTGGCGCA | homer_8.GTCTGGCGCA | cluster_22 | wt_top1 | 12 | 11.24 | 100 | G T y T S K C G C A++ | ++T G C G M S A R A C |  |
wt_top1_m32_homer_32.AGTWYCTATTCT | homer_32.AGTWYCTATTCT | cluster_17 | wt_top1 | 12 | 13.55 | 100 | A G T w y C T A T T y T | A R A A T A G R W A C T |  |
wt_top1_m11_homer_11.GTGAGTGGACCA | homer_11.GTGAGTGGACCA | cluster_3 | wt_top1 | 12 | 12.88 | 100 | G T G A G T G G A C C A | T G G T C C A C T C A C |  |
wt_top1_m31_homer_31.CACGGGAC | homer_31.CACGGGAC | cluster_7 | wt_top1 | 8 | 3.57 | 100 | C A C G G G A C | G T C C C G T G |  |
wt_top1_m29_homer_29.TAAGCCACAG | homer_29.TAAGCCACAG | cluster_19 | wt_top1 | 12 | 13.75 | 100 | T A A G C C A C A G++ | ++C T G T G G C T T A |  |
wt_top1_m9_homer_9.AGGAATTTAGKM | homer_9.AGGAATTTAGKM | cluster_18 | wt_top1 | 12 | 7.93 | 101 | A G G A A T T T A s k m | K M S T A A A T T C C T |  |
wt_top1_m5_homer_5.CCAAAAACCTCT | homer_5.CCAAAAACCTCT | cluster_16 | wt_top1 | 12 | 14.57 | 100 | C C W A A R A C C T C T | A G A G G T Y T T W G G |  |
Click on the column names to change the order of the data. Write the name of one cluster, collection or a pattern in the Search window.
Heatmap View ## Heatmap View Distance table | PDF

Additional Files

## Exported files

File | Description
--- | ---
Pairwise comparison | This table shows the pairwise comparison between all the input motifs using different metrics. This is the compare-matrices result.
Matrix description | This table shows information of each input motif.
Cluster-wise Motif Files [zip] | One TRANSFAC file is generated for each cluster including all the input motifs grouped in the corresponding cluster.
Root motifs | A file with the root matrix of each cluster.
Motif collections per cluster | A tab separated file containing the counts of motif of each collection on each cluster.
Clusters | A tab separated file containing the clusters and their correspondng motifs.
Central motifs IDs | A tab separated file containing the central motif, that one who is the most similar to all the others motif in the same cluster.
Central motifs (in TRANSFAC format) | A transfac file containing the central motif, that one who is the most similar to all the others motif within the same cluster.
Input motifs | The input motifs analyzed with matrix-clustering.

- References
  1. Castro-Mondragon JA et al. RSAT matrix-clustering: dynamic exploration and redundancy reduction of transcription factor binding motif collections. doi: 10.1093/nar/gkx314; Nucleic Acids Research (2017)
  2. Last RSAT release: Nguyen NTT et al. RSAT 2018: regulatory sequence analysis tools 20th anniversary. Nucleic Acids Research (2018).
- Additional Information
  - Jacques van Helden course
- Contact
  - Jaime Castro-Mondragon - j.a.c.mondragon@ncmm.uio.no
  - Morgane Thomas-Chollier - mthomas@biologie.ens.fr
  - Jacques van Helden - Jacques.van-Helden@univ-amu.fr