matrix-clustering JASPAR_2020

RSAT - matrix-clustering result

Analysis: JASPAR_2020_insects (08/10/2019 11:48)

Command

matrix-clustering  -v 2 -matrix CORE_insects data/motifs/Motifs_parsed_ID/JASPAR2020_CORE_insects.tf tf -matrix NV_insects data/motifs/Motifs_parsed_ID/JASPAR2020_Unvalidated_insects.tf tf -hclust_method average -calc sum -title 'JASPAR 2020 insects' -metric_build_tree Ncor -lth w 5 -lth cor 0.6 -lth Ncor 0.4 -label_in_tree name -return json,heatmap -calc mean -quick -o results/JASPAR_2020_matrix_clustering/insects_CORE_+_UNVALIDATED/interactive_trees/JASPAR_2020_CORE_+_UNVALIDATED_matrix_clustering_insects

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?

146

Download

Download

average

Ncor

Ncor = 0.4
cor = 0.6

Logo Forest (dynamic browsing)

Logo Forest (rapid overview - low image quality)

Clusters Summary

Clusters Summary Table

Cluster ID	# Motifs	Motif_Name::Collection	Number of Motifs by Collection	Root Motif (transfac Format)
cluster_1	2	prd::CORE_insects:: ovo::CORE_insects::	CORE_insects::2_motifs	Show matrix
cluster_2	70	bap::CORE_insects:: onecut::CORE_insects:: Dll::CORE_insects:: Dr::CORE_insects:: lbe::CORE_insects:: lbl::CORE_insects:: Vsx2::CORE_insects:: inv::CORE_insects:: Ubx::CORE_insects:: HHEX::CORE_insects:: CG4328-RA::CORE_insects:: Abd-B::CORE_insects:: Dbx::CORE_insects:: H2_0::CORE_insects:: zen::CORE_insects:: zen2::CORE_insects:: E5::CORE_insects:: ap::CORE_insects:: ind::CORE_insects:: pb::CORE_insects:: CG18599::CORE_insects:: ems::CORE_insects:: eve::CORE_insects:: Lim3::CORE_insects:: Awh::CORE_insects:: HGTX::CORE_insects:: Vsx1::CORE_insects:: otp::CORE_insects:: btn::CORE_insects:: Scr::CORE_insects:: Dfd::CORE_insects:: Antp::CORE_insects:: ftz::CORE_insects:: abd-A::CORE_insects:: lab::CORE_insects:: CG15696-RA::CORE_insects:: Lim1::CORE_insects:: CG11294::CORE_insects:: al::CORE_insects:: repo::CORE_insects:: CG32105::CORE_insects:: exex::CORE_insects:: ro::CORE_insects:: Pph13::CORE_insects:: Rx::CORE_insects:: CG9876::CORE_insects:: OdsH::CORE_insects:: PHDP::CORE_insects:: hbn::CORE_insects:: unpg::CORE_insects:: CG32532::CORE_insects:: en::CORE_insects:: C15::CORE_insects:: B-H2::CORE_insects:: B-H1::CORE_insects:: unc-4::CORE_insects:: Hmx::CORE_insects:: CG11085::CORE_insects:: CG34031::CORE_insects:: tup::CORE_insects:: NK7_1::CORE_insects:: bsh::CORE_insects:: slou::CORE_insects:: lms::CORE_insects:: ttk::CORE_insects:: dve::CORE_insects:: Ptx1::CORE_insects:: Gsc::CORE_insects:: bcd::CORE_insects:: oc::CORE_insects::	CORE_insects::70_motifs	Show matrix
cluster_3	10	hth::CORE_insects:: vis::CORE_insects:: achi::CORE_insects:: Optix::CORE_insects:: Six4::CORE_insects:: so::CORE_insects:: CG11617::CORE_insects:: caup::CORE_insects:: ara::CORE_insects:: mirr::CORE_insects::	CORE_insects::10_motifs	Show matrix
cluster_4	3	BEAF-32::CORE_insects:: pnr::CORE_insects:: Dref::CORE_insects::	CORE_insects::3_motifs	Show matrix
cluster_5	2	Eip74EF::CORE_insects:: Ets21C::CORE_insects::	CORE_insects::2_motifs	Show matrix
cluster_6	2	su_Hw_::CORE_insects:: *Cp190::NV_insects::	NV_insects::1_motif CORE_insects::1_motif	Show matrix
cluster_7	3	ct::CORE_insects:: tin::CORE_insects:: vnd::CORE_insects::	CORE_insects::3_motifs	Show matrix
cluster_8	6	cad::CORE_insects:: hb::CORE_insects:: slp1::CORE_insects:: fkh::CORE_insects:: br::CORE_insects:: br_var_4_::CORE_insects::	CORE_insects::6_motifs	Show matrix
cluster_9	5	z::CORE_insects:: Trl::CORE_insects:: trx::NV_insects:: Clamp::CORE_insects:: Dsp1::NV_insects::	CORE_insects::3_motifs NV_insects::2_motifs	Show matrix
cluster_10	2	dl::CORE_insects:: dl_var_2_::CORE_insects::	CORE_insects::2_motifs	Show matrix
cluster_11	2	Pdp1::CORE_insects:: gt::CORE_insects::	CORE_insects::2_motifs	Show matrix
cluster_12	2	br_var_3_::CORE_insects:: D::CORE_insects::	CORE_insects::2_motifs	Show matrix
cluster_13	2	sna::CORE_insects:: vfl::CORE_insects::	CORE_insects::2_motifs	Show matrix
cluster_14	3	opa::CORE_insects:: btd::CORE_insects:: hkb::CORE_insects::	CORE_insects::3_motifs	Show matrix
cluster_15	2	grh::CORE_insects:: Kr::CORE_insects::	CORE_insects::2_motifs	Show matrix
cluster_16	1	Bgb::run::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_17	1	gcm2::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_18	1	twi::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_19	1	Cf2::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_20	1	schlank::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_21	1	Deaf1::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_22	1	Hsf::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_23	2	tll::CORE_insects:: exd::CORE_insects::	CORE_insects::2_motifs	Show matrix
cluster_24	2	br_var_2_::CORE_insects:: kni::CORE_insects::	CORE_insects::2_motifs	Show matrix
cluster_25	3	Mad::CORE_insects:: brk::CORE_insects:: CTCF::CORE_insects::	CORE_insects::3_motifs	Show matrix
cluster_26	1	slbo::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_27	1	vvl::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_28	1	odd::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_29	1	sd::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_30	1	Stat92E::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_31	1	nub::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_32	1	usp::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_33	1	h::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_34	1	Su_H_::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_35	1	M1BP::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_36	1	pho::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_37	1	pan::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_38	1	EcR::usp::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_39	1	dmrt99B::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_40	1	sv::CORE_insects	CORE_insects : 1 motif	Show matrix
cluster_41	1	cnc::maf-S::CORE_insects	CORE_insects : 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

Hide All

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

cluster_31

cluster_32

cluster_33

cluster_34

cluster_35

cluster_36

cluster_37

cluster_38

cluster_39

cluster_40

cluster_41

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

cluster_31

cluster_32

cluster_33

cluster_34

cluster_35

cluster_36

cluster_37

cluster_38

cluster_39

cluster_40

cluster_41

Display Branch-Motifs

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)
CORE_insects_m127_MA0205_2	Trl	cluster_9	CORE_insects	18	8.92	6858	--rrrAGAGAGArr----	----YYTCTCTCTYYY--
CORE_insects_m81_MA0230_1	lab	cluster_2	CORE_insects	10	8.11	16	-TTAATkA--	--TMATTAA-
CORE_insects_m129_MA0248_1	tup	cluster_2	CORE_insects	10	6.51	16	-wTAATkG--	--CMATTAW-
CORE_insects_m41_MA0445_1	D	cluster_12	CORE_insects	11	8.89	29	ARAACAAWRGR	yCyWTTGTTyT
CORE_insects_m32_MA0178_1	CG32105	cluster_2	CORE_insects	10	7.28	19	-TTAATTA--	--TAATTAA-
CORE_insects_m14_MA0242_1	Bgb::run	cluster_16	CORE_insects	9	9.61	29	wAACCGCAR	YTGCGGTTW
CORE_insects_m36_MA0184_1	CG9876	cluster_2	CORE_insects	10	7.33	20	-yTAATTR--	--YAATTAR-
CORE_insects_m65_MA0190_1	Gsc	cluster_2	CORE_insects	10	7.46	22	--RGATTA--	--TAATCy--
CORE_insects_m42_MA0174_1	Dbx	cluster_2	CORE_insects	10	6.52	16	-TTwATkA--	--TMATWAA-
CORE_insects_m75_MA1458_1	Hsf	cluster_22	CORE_insects	12	8.17	2122	wwTTCcAGAAww	WWTTCTGGAAWW
CORE_insects_m141_MA0255_1	z	cluster_9	CORE_insects	18	6.05	41	----WMYCACTCAW----	----wTGAGtGrkw----
CORE_insects_m56_MA0220_1	en	cluster_2	CORE_insects	10	7.58	23	-yTAATTr--	--YAATTAR-
CORE_insects_m66_MA0447_1	gt	cluster_11	CORE_insects	12	9.68	60	-rTTACGTAAy-	-RTTACGTAAY-
CORE_insects_m123_MA0533_1	su_Hw_	cluster_6	CORE_insects	22	12.10	4737	-gCcyaAAAGTATGCwAyrmww	WWKYRTWGCATACTTTTRGGC-
CORE_insects_m78_MA0229_1	inv	cluster_2	CORE_insects	10	8.62	16	wyTAATTR--	--YAATTARW
CORE_insects_m30_MA0176_1	CG15696-RA	cluster_2	CORE_insects	10	6.53	32	-TTaATTr--	--YAATTAA-
CORE_insects_m16_MA0011_1	br_var_2_	cluster_24	CORE_insects	12	5.35	12	---wwCTAtTt-	-AAATAGWW---
CORE_insects_m102_MA1702_1	Pdp1	cluster_11	CORE_insects	12	8.25	4816	WRTTRCATAAYW	wrTTATGYAAyw
CORE_insects_m45_MA0022_1	dl	cluster_10	CORE_insects	12	8.94	13	sGGGtTTTTCCs	SGGAAAAACCCS
CORE_insects_m7_MA0210_1	ara	cluster_3	CORE_insects	7	5.29	34	-wwACA-	-TGTWW-
CORE_insects_m67_MA0449_1	h	cluster_33	CORE_insects	10	7.01	34	GgCrCGyGcC	GGCRCGYGCC
CORE_insects_m84_MA0194_1	Lim1	cluster_2	CORE_insects	10	9.14	18	-TTAATTA--	--TAATTAA-
CORE_insects_m18_MA0013_1	br_var_4_	cluster_8	CORE_insects	15	8.04	6	--twrTAAAcwAw--	--WTWGTTTAYWA--
CORE_insects_m113_MA0203_1	Scr	cluster_2	CORE_insects	10	7.91	25	-yTAATKA--	--TMATTAR-
NV_insects_m3_UN0109_1	*trx	cluster_9	NV_insects	18	8.21	4058	---agaGAGAGCgrg---	---CYCGCTCTCTCT---
CORE_insects_m119_MA0086_2	sna	cluster_13	CORE_insects	13	8.98	1001	kbrACAGGTGyaa	TTRCACCTGTYVM
CORE_insects_m8_MA0167_1	Awh	cluster_2	CORE_insects	10	7.09	40	-yTAATTA--	--TAATTAR-
CORE_insects_m128_MA0460_1	ttk	cluster_2	CORE_insects	10	9.56	22	-ATTATCCTK	mAGGATAAt-
CORE_insects_m24_MA0216_2	cad	cluster_8	CORE_insects	15	9.40	2303	rgymATAAAAm----	----KTTTTATKRCY
CORE_insects_m46_MA0023_1	dl_var_2_	cluster_10	CORE_insects	12	9.79	9	-GGGGwtTTCC-	-GGAAAWCCCC-
CORE_insects_m105_MA0536_1	pnr	cluster_4	CORE_insects	13	9.75	869	RRCTATCGATA--	--TATCGATagyy
CORE_insects_m138_MA0181_1	Vsx1	cluster_2	CORE_insects	10	7.28	22	-yTAATTR--	--YAATTAR-
CORE_insects_m58_MA0221_1	eve	cluster_2	CORE_insects	10	6.46	22	-yTAATkA--	--TMATTAR-
CORE_insects_m132_MA0250_1	unc-4	cluster_2	CORE_insects	10	7.73	21	-tTAATTr--	--YAATTAA-
CORE_insects_m111_MA0202_1	Rx	cluster_2	CORE_insects	10	8.08	27	-yTAATTr--	--YAATTAR-
CORE_insects_m28_MA0172_1	CG11294	cluster_2	CORE_insects	10	8.81	15	-TTAATTA--	--TAATTAA-
CORE_insects_m100_MA0237_2	pan	cluster_37	CORE_insects	14	10.23	71	kCGsykyyTTTgrW	WYCAAARRMRSCGM
CORE_insects_m87_MA1459_1	M1BP	cluster_35	CORE_insects	18	10.99	1461	vvtayGGTCACACTgmym	KRKCAGTGTGACCRTABB
CORE_insects_m104_MA1460_1	pho	cluster_36	CORE_insects	11	6.52	6951	mrATGGCCGmc	GKCGGCCATYK
CORE_insects_m85_MA0195_1	Lim3	cluster_2	CORE_insects	10	6.04	20	-yTAATTA--	--TAATTAR-
CORE_insects_m48_MA1455_1	dmrt99B	cluster_39	CORE_insects	17	10.97	999	wtGhwACAATGTwdCaa	TTGHWACATTGTWDCAW
CORE_insects_m103_MA0457_1	PHDP	cluster_2	CORE_insects	10	6.76	17	-yTAATTa--	--TAATTAR-
CORE_insects_m101_MA0238_1	pb	cluster_2	CORE_insects	10	7.99	24	-yTAATkA--	--TMATTAR-
CORE_insects_m124_MA1461_1	sv	cluster_40	CORE_insects	17	13.01	999	ybCrsysAwGCGTGACg	CGTCACGCWTSRSYGVR
CORE_insects_m115_MA0204_1	Six4	cluster_3	CORE_insects	7	7.07	20	-TGAyAC	GTRTCA-
CORE_insects_m90_MA0196_1	NK7_1	cluster_2	CORE_insects	10	6.25	35	-TTAATtr--	--YAATTAA-
CORE_insects_m51_MA0915_1	dve	cluster_2	CORE_insects	10	8.36	1000	-YGGATTAK-	-mTAATCCr-
CORE_insects_m142_MA0256_1	zen	cluster_2	CORE_insects	10	8.14	16	-yTAATKA--	--TMATTAR-
CORE_insects_m43_MA0185_1	Deaf1	cluster_21	CORE_insects	6	5.73	10	YTCGks	SMCGAR
CORE_insects_m40_MA0531_1	CTCF	cluster_25	CORE_insects	22	9.75	1902	ccgmyAGrTGGCGCy-------	-------RGCGCCAYCTRKCGG
CORE_insects_m1_MA0206_1	abd-A	cluster_2	CORE_insects	10	7.29	18	-TTAATkA--	--TMATTAA-
CORE_insects_m106_MA0200_1	Pph13	cluster_2	CORE_insects	10	7.25	21	-mTAATTr--	--YAATTAK-
CORE_insects_m94_MA0198_1	OdsH	cluster_2	CORE_insects	10	7.86	22	-yTAATTr--	--YAATTAR-
CORE_insects_m39_MA0218_1	ct	cluster_7	CORE_insects	10	5.78	20	----GTTYAR	YTrAAC----
CORE_insects_m89_MA0233_1	mirr	cluster_3	CORE_insects	7	5.31	41	-wAACA-	-TGTTW-
CORE_insects_m52_MA0189_1	E5	cluster_2	CORE_insects	10	6.39	43	-yTAATkA--	--TMATTAR-
CORE_insects_m49_MA0188_1	Dr	cluster_2	CORE_insects	10	8.21	21	-sCAATTA--	--TAATTGS-
CORE_insects_m80_MA0452_2	Kr	cluster_15	CORE_insects	14	9.82	1296	ytyAACCCTTTyty	RARAAAGGGTTRAR
CORE_insects_m55_MA0219_1	ems	cluster_2	CORE_insects	10	6.26	20	-yTAATkR--	--YMATTAR-
CORE_insects_m74_MA0192_1	Hmx	cluster_2	CORE_insects	10	7.97	20	-TTAATTG--	--CAATTAA-
CORE_insects_m64_MA1457_1	grh	cluster_15	CORE_insects	14	8.76	3332	-raAACCrGTTtty	RAAAACYGGTTTY-
CORE_insects_m140_MA0254_1	vvl	cluster_27	CORE_insects	6	5.66	11	TAtkMA	TKMATA
NV_insects_m2_UN0108_1	*Dsp1	cluster_9	NV_insects	18	11.18	1078	-wGmGAGCGAGAsGGmga	TCKCCSTCTCGCTCKCW-
CORE_insects_m17_MA0012_1	br_var_3_	cluster_12	CORE_insects	11	6.47	12	wAAACwArwhs	SDWYTWGTTTW
CORE_insects_m27_MA0171_1	CG11085	cluster_2	CORE_insects	10	7.55	13	-TTAATtG--	--CAATTAA-
CORE_insects_m121_MA0532_1	Stat92E	cluster_30	CORE_insects	15	9.99	118	cgsAwTTCyrrGAAw	WTTCYYRGAAWTSCG
CORE_insects_m11_MA0211_1	bap	cluster_2	CORE_insects	10	8.73	23	-YACTTAA--	--TTAAGTR-
CORE_insects_m59_MA0222_1	exd	cluster_23	CORE_insects	11	7.88	17	tTTTGAYr---	---YRTCAAAA
CORE_insects_m139_MA0180_1	Vsx2	cluster_2	CORE_insects	10	9.30	13	kTTAATTAG-	-CTAATTAAM
CORE_insects_m12_MA0212_1	bcd	cluster_2	CORE_insects	10	7.64	22	--TAATCC--	--GGATTA--
CORE_insects_m125_MA0247_2	tin	cluster_7	CORE_insects	10	9.01	515	SCACTYGAVW	wbTCrAGTGs
CORE_insects_m72_MA0183_1	HHEX	cluster_2	CORE_insects	10	5.85	26	wYkAATWA--	--TWATTMRW
CORE_insects_m83_MA0232_1	lbl	cluster_2	CORE_insects	10	6.12	23	--TAATkR--	--YMATTA--
CORE_insects_m136_MA0252_1	vis	cluster_3	CORE_insects	7	7.10	22	-TGACAs	STGTCA-
CORE_insects_m122_MA0085_1	Su_H_	cluster_34	CORE_insects	16	11.56	10	byGTGRGAAmCkarmt	AKYTMGKTTCYCACRV
CORE_insects_m120_MA0246_1	so	cluster_3	CORE_insects	7	7.46	27	-TGATAC	GTATCA-
CORE_insects_m86_MA0175_1	lms	cluster_2	CORE_insects	10	7.10	21	-yTAATtr--	--YAATTAR-
CORE_insects_m73_MA0450_1	hkb	cluster_14	CORE_insects	12	9.72	32	---kRGGCGTGA	TCACGCCYM---
CORE_insects_m15_MA0010_1	br	cluster_8	CORE_insects	15	8.75	9	-rtaAwwrACAArwc	GWYTTGTYWWTTAY-
CORE_insects_m50_MA1456_1	Dref	cluster_4	CORE_insects	13	9.37	3112	-rhTATCGATa--	--TATCGATADY-
CORE_insects_m82_MA0231_1	lbe	cluster_2	CORE_insects	10	5.56	22	--TAAytA

RSAT - matrix-clustering result

Analysis: JASPAR_2020_insects (08/10/2019 11:48)

Command

Results Summary

Clusters Summary Table

Individual Cluster View

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Branch Motifs

Definitions

Individual Motif View