RSAT - matrix-clustering result

Analysis: deor (17/08/2026 14:08)

Command

matrix-clustering  -v 1 -max_matrices 300 -matrix Collection_1 $RSAT/public_html/tmp/www-data/2026/08/17/matrix-clustering_2026-08-17.140657_ijaSdV/matrix-clustering_query_matrices.meme meme -hclust_method average -calc sum -title deor -metric_build_tree Ncor -lth w 5 -lth cor 0.3 -lth Ncor 0.2 -quick -label_in_tree name -return json,heatmap -o $RSAT/public_html/tmp/www-data/2026/08/17/matrix-clustering_2026-08-17.140657_ijaSdV/matrix-clustering

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

100

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average

Ncor

Ncor = 0.2
cor = 0.3

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	94	IDSTQTRR_CsqR::Collection_1:: AASQRTYR_SO1758_RP::Collection_1:: AQSTRTYR_SO1758_RP::Collection_1:: AKSSRTYR_SO1758_RP::Collection_1:: AKSTRTYR_SO1758_RP::Collection_1:: LKSEMTRR_DeoR::Collection_1:: LKSEMTRR_DeoR_RP::Collection_1:: VKSTTARE_SufR_RP::Collection_1:: IRSTTARE_SufR_RP::Collection_1:: IKSTTARE_SufR_RP::Collection_1:: VKSTTARD_SufR_RP::Collection_1:: VDTGTTRK_SrlR_RP::Collection_1:: VETGTTRK_SrlR_RP::Collection_1:: VESEVTRK_GlmR_RP::Collection_1:: EKEVTIKD_GlmR_RP::Collection_1:: VDSEVTRK_GlmR_RP::Collection_1:: VASAVTRA_AgaR_RP::Collection_1:: VESSVTRN_AgaR_RP::Collection_1:: VESSVTRS_AgaR_RP::Collection_1:: VESSVTRS_AgaR2_RP::Collection_1:: VASEVTRS_AgaR_RP::Collection_1:: VESTVTRS_AgaR_RP::Collection_1:: VKSEVTRN_RhaR_RP::Collection_1:: VKSEVTRS_RhaR_RP::Collection_1:: VASTVTRN_AgaR_RP::Collection_1:: VNSTVTRN_AgaR::Collection_1:: VSSEVTRS_AgaR_RP::Collection_1:: VDSAVTRH_AgaR_RP::Collection_1:: VNSTVTRN_AgaR_RP::Collection_1:: ISSEMTYR_YcnK_RP::Collection_1:: ISSEMTYR_CutR::Collection_1:: TSSSSTRR_FucR_RP::Collection_1:: VKSTSTRR_FucR_RP::Collection_1:: AKTTMGRQ_AzrR_RP::Collection_1:: TESRDTRR_GlcR::Collection_1:: VGSRDTRR_GlcR_RP::Collection_1:: AESRDTRR_GlcR_RP::Collection_1:: TESRDTRR_GlcR_RP::Collection_1:: VESRDTRR_GlcR_RP::Collection_1:: ITSAMTRR_GalR_RP::Collection_1:: RRGLLKVH_GalR_RP::Collection_1:: VASEATRR_RhaR_RP::Collection_1:: IQSEATRR_RhaR_RP::Collection_1:: VQSEATRR_RhaR_RP::Collection_1:: VGSEATRR_RhaR_RP::Collection_1:: VPSEATRR_RhaR_RP::Collection_1:: TESPQTRR_GlpR::Collection_1:: TESPQTRR_GlpR_RP::Collection_1:: VNSKVTRK_PflR_21bp_RP::Collection_1:: LDSKNTRR_IolR_RP::Collection_1:: LDSKNTRR_IolR::Collection_1:: MKSMITRR_RhaR_RP::Collection_1:: TNSDMTRR_LacR_RP::Collection_1:: VTTEETRR_RhaR_RP::Collection_1:: VSTEETRR_RhaR_RP::Collection_1:: VASDMTRR_LacR_RP::Collection_1:: VTSDMTRR_LacR_RP::Collection_1:: VHSDMTRR_LacR_RP::Collection_1:: IKSDMTRR_LacR_RP::Collection_1:: VKSDMTRR_LacR_RP::Collection_1:: VNSTMTRR_LacR_RP::Collection_1:: VSTEETRR_RhaR::Collection_1:: ISTDMTRR_LacR_RP::Collection_1:: VNSDMTRR_LacR_RP::Collection_1:: SKSESTRR_FruR_RP::Collection_1:: IESISTRR_FruR_RP::Collection_1:: VSSESTRR_FruR_RP::Collection_1:: VESPATRR_UlaR::Collection_1:: VESPATRR_UlaR_RP::Collection_1:: IQSESTRR_FruR::Collection_1:: LQSASTRR_FruR::Collection_1:: LNDLGEEQ_FruR_RP::Collection_1:: LDSESTRR_FruR_RP::Collection_1:: LESESTRR_FruR__RP::Collection_1:: LQSESSRR_FruR_RP::Collection_1:: VNSESTRR_FruR_RP::Collection_1:: VSSKSTRR_FruR_RP::Collection_1:: IKSESTRR_FruR_RP::Collection_1:: MKSESTRR_FruR_RP::Collection_1:: VTSESTRR_FruR_RP::Collection_1:: IQSESTRR_FruR_RP::Collection_1:: VDSISTRR_FruR_RP::Collection_1:: LHSESTRR_FruR_RP::Collection_1:: LQSESTRR_FruR_RP::Collection_1:: IHSESTRR_FruR_RP::Collection_1:: LQSASTRR_FruR_RP::Collection_1:: SFSESTRR_FruR_RP::Collection_1:: SQSESTRR_FruR_RP::Collection_1:: MKAPSTRR_IolR_RP::Collection_1:: SASLQARR_SufR_RP::Collection_1:: ALSPQARR_SufR_RP::Collection_1:: AVSPQARR_SufR_RP::Collection_1:: AQSPQARR_SufR_RP::Collection_1:: AQTPQARR_SufR_RP::Collection_1::	Collection_1::94_motifs	Show matrix
cluster_2	4	TQSHETRR_FucR_RP::Collection_1:: TESRETRR_FucR_RP::Collection_1:: TESKETRR_FucR::Collection_1:: TESKETRR_FucR_RP::Collection_1::	Collection_1::4_motifs	Show matrix
cluster_3	2	VGTSETRR_FruR_RP::Collection_1:: VGTTETRR_FruR_RP::Collection_1::	Collection_1::2_motifs	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

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cluster_1

cluster_2

cluster_3

Display Logo Trees

cluster_1

cluster_2

cluster_3

Display Branch-Motifs

cluster_1

Branch Motifs
Node	Consensus	Logo	Logo (Reverse)	Collections	Matrix (Transfac format)	IC	Nb sites
Node 1	----------yrATCrwnnnyGATyrw--------------			Collection_1::2_motifs	PSSM	12.77	24
Node 2	---------------TkTCrAnnnnTKWCRA----------			Collection_1::2_motifs	PSSM	12.62	12
Node 3	----------wwdTCwWkCAwwwTCTwYCA-----------			Collection_1::2_motifs	PSSM	17.07	30
Node 4	---------ACTTATAAwTAMTTAww---------------			Collection_1::2_motifs	PSSM	17.87	11
Node 5	----------YrATCRwnnnyGATCRw--------------			Collection_1::2_motifs	PSSM	10.97	17
Node 6	----------wwwwcAATCAaAAACAATCA-----------			Collection_1::2_motifs	PSSM	17.74	35
Node 7	--------ACTGACACTAsGCTGTCAGT-------------			Collection_1::2_motifs	PSSM	27.03	2
Node 8	----------yrATCrwnnnyGATYrw--------------			Collection_1::4_motifs	PSSM	11.54	40
Node 9	----------------------AtCTTTCGAwwCGAAAsTT			Collection_1::2_motifs	PSSM	22.90	9
Node 10	---------ACTTATAAwTAMTTAww---------------			Collection_1::3_motifs	PSSM	17.99	12
Node 11	----------wwwwCAwTCAaAAACAwTCA-----------			Collection_1::3_motifs	PSSM	17.03	46
Node 12	----------AAAACAkTCAwAAaCAATCA-----------			Collection_1::2_motifs	PSSM	21.94	15
Node 13	-----------TWwArCAACwhwatkGTTGYTWwW------			Collection_1::2_motifs	PSSM	20.21	14
Node 14	--------wakCTATTGTCAATAAAAA--------------			Collection_1::2_motifs	PSSM	19.66	5
Node 15	----------yrATCrwnnnyGATYrw--------------			Collection_1::5_motifs	PSSM	11.43	48
Node 16	--------AwhAAAMAAnAAhAAACAA--------------			Collection_1::2_motifs	PSSM	14.56	24
Node 17	---------ACTTATAAwTACTTATw---------------			Collection_1::4_motifs	PSSM	18.38	18
Node 18	----------------------WwCTTTCGwwTCGAAACTT			Collection_1::3_motifs	PSSM	21.26	17
Node 19	----------wWwwCAwTCAaAAACAwTCA-----------			Collection_1::5_motifs	PSSM	17.31	61
Node 20	----------AAAwCAwTCAAAWTCATTCA-----------			Collection_1::2_motifs	PSSM	20.90	10
Node 21	--------------CTTTCrtTTTrTTTC------------			Collection_1::2_motifs	PSSM	12.83	25
Node 22	-----------TTwARCAACwwwwtkGTTGYTwwA------			Collection_1::3_motifs	PSSM	20.33	17
Node 23	----------AAAwCAwTCAaATTMATTCA-----------			Collection_1::3_motifs	PSSM	19.35	17
Node 24	----------yGMACAwnnnCGCACAy--------------			Collection_1::2_motifs	PSSM	14.07	16
Node 25	-----------TTwrACAACAwwrtTGTTGTTwAw------			Collection_1::4_motifs	PSSM	20.99	36
Node 26	--------wrkCTATTGTCAATAAAAA--------------			Collection_1::3_motifs	PSSM	19.70	6
Node 27	--------wwkwwWmWWnwwdwwwyAw--------------			Collection_1::2_motifs	PSSM	8.51	20
Node 28	--------ACTGACAyaAwSCTGTCAGT-------------			Collection_1::3_motifs	PSSM	23.40	14
Node 29	-----------TTwrACAACAwwrtTGTTGTTwAw------			Collection_1::5_motifs	PSSM	20.79	39
Node 30	----------TmyTCrkTCAdhATyRkTCA-----------			Collection_1::2_motifs	PSSM	16.99	10
Node 31	-------CAAAAAwaAACAAAmAtrA---------------			Collection_1::2_motifs	PSSM	18.40	9
Node 32	----------wwdTCwWkCAwwwTCTwyCA-----------			Collection_1::3_motifs	PSSM	17.15	31
Node 33	----------wWwwCAwTCAwAAACAwTCA-----------			Collection_1::6_motifs	PSSM	17.12	70
Node 34	----------AAAWMyTTCAAAAACkkTCA-----------			Collection_1::2_motifs	PSSM	20.89	23
Node 35	--------wawAAwCAAaAAwAAACAAA-------------			Collection_1::3_motifs	PSSM	14.46	47
Node 36	--------------CTTTCryTTtrTTTyyAAtCGAAAs--			Collection_1::2_motifs	PSSM	24.16	14
Node 37	--------------CTTTCrtTTTvTTTC------------			Collection_1::3_motifs	PSSM	12.69	28
Node 38	----------AAwwCAwTCAwAAwCAwTCA-----------			Collection_1::9_motifs	PSSM	16.77	87
Node 39	---------ACTTATAAwTACTTATwRAT------------			Collection_1::5_motifs	PSSM	21.68	22
Node 40	--------AArAAACAAAAwhAAACAAA-------------			Collection_1::4_motifs	PSSM	15.54	62
Node 41	wwwwywwTCAwAwwCatTCAAAAwCAaTCAwww--------			Collection_1::2_motifs	PSSM	23.76	77
Node 42	----------AAAwCawTCAAAAwCawTCA-----------			Collection_1::11_motifs	PSSM	16.61	110
Node 43	--------aarAAACAAaAwhAAACAAA-------------			Collection_1::6_motifs	PSSM	12.62	82
Node 44	--------------TTTTCRAatatTTTCGA----------			Collection_1::3_motifs	PSSM	15.14	20
Node 45	-----------AAAATGTGAAAAwrTGK-------------			Collection_1::2_motifs	PSSM	15.22	15
Node 46	-------twwTGTtAkwwwamTmACAwwa------------			Collection_1::2_motifs	PSSM	13.92	82
Node 47	--------amwAAAtAAnAacrAAaAa--------------			Collection_1::2_motifs	PSSM	15.59	8
Node 48	-------wwATGwTCGwWwwCGmrCATww------------			Collection_1::2_motifs	PSSM	15.68	122
Node 49	--------AarAAACAAaAwhAAACAAA-------------			Collection_1::7_motifs	PSSM	12.58	86
Node 50	----------WAWwCawTCAaAAwCawTCA-----------			Collection_1::13_motifs	PSSM	15.99	120
Node 51	-ATCTTTCAAAkTGtGATCTWTwTvhwWyA-----------			Collection_1::2_motifs	PSSM	26.52	17
Node 52	----------wTCTCTWACwAWTTTCATCA-----------			Collection_1::2_motifs	PSSM	17.52	35
Node 53	--------AaaAAACAAaAwhAAACAAA-------------			Collection_1::9_motifs	PSSM	12.37	94
Node 54	--------------CTTTCryTTtrTTTyyAAtCGAAAs--			Collection_1::3_motifs	PSSM	24.22	15
Node 55	---------wTwAyMAAAAwATaAyCAAaA-----------			Collection_1::2_motifs	PSSM	15.93	38
Node 56	----------ydwwTwwTCAAAAktAATCAywwt-------			Collection_1::2_motifs	PSSM	16.54	29
Node 57	----------wAAwCAwTCAAAAwCAwTCA-----------			Collection_1::14_motifs	PSSM	15.81	135
Node 58	--------yrkyTwyTGTCAATAAAAw--------------			Collection_1::4_motifs	PSSM	16.45	11
Node 59	--------------CTTTCrTTTyrTTTCkwTTk-------			Collection_1::4_motifs	PSSM	15.63	109
Node 60	--------------YTTTCrAatatTTTCGA----------			Collection_1::4_motifs	PSSM	14.52	23
Node 61	--------------CTTTCrTTTyrTTTYkwTTk-------			Collection_1::5_motifs	PSSM	15.28	112
Node 62	----------wAwwCawTCAaAAwCwwTCA-----------			Collection_1::17_motifs	PSSM	14.87	166
Node 63	-------CAaaAAAcAAaAwhAAAcAAA-------------			Collection_1::11_motifs	PSSM	13.44	103
Node 64	wwwwywwTCAwAwwCawTCAaAAwCawTCAwww--------			Collection_1::19_motifs	PSSM	22.05	243
Node 65	wwwwywwTCAwAwwCawTCAAAAwCAwTCAwwwt-------			Collection_1::21_motifs	PSSM	21.62	272
Node 66	---------wTwAyCAAaAwATaAyCAAaAhd---------			Collection_1::3_motifs	PSSM	13.92	46
Node 67	-------CAaaAAamAAaAwhAAACAAA-------------			Collection_1::12_motifs	PSSM	13.35	117
Node 68	--------ACTGACAtmAwsCTGTCAGT-------------			Collection_1::4_motifs	PSSM	19.28	17
Node 69	--------------CTTTCrwTTyrTTTCkwTTk-------			Collection_1::9_motifs	PSSM	13.83	135
Node 70	-------wwATGwTCGwwwwCGAwCATww------------			Collection_1::7_motifs	PSSM	13.24	170
Node 71	-------wwATGwTCrwwwwCGmwCAtww------------			Collection_1::9_motifs	PSSM	12.79	186
Node 72	wwwwywwTCAwwwwCwwTCAAAWwcawTCAwwwt-------			Collection_1::23_motifs	PSSM	20.59	307
Node 73	--------------CTTTCrwTTyrTTTCkwTTkwwsyTTw			Collection_1::10_motifs	PSSM	20.05	137
Node 74	-------CAawAAwmAAaAwwwAAcmAAaAhd---------			Collection_1::15_motifs	PSSM	13.34	163
Node 75	wwwwywwTCAwwawCwwTCAAAWwcawTCAwwwt-------			Collection_1::24_motifs	PSSM	20.25	318
Node 76	--------------AyTTGAAyAwTrTTCAArT--------			Collection_1::2_motifs	PSSM	21.90	31
Node 77	wwwwywwymAwwAwCawtmAaAAwcaaTCAwwwt-------			Collection_1::39_motifs	PSSM	16.63	481
Node 78	--------------CTTTCrwTTyrTTTCkwWTkGAAAsTw			Collection_1::13_motifs	PSSM	20.02	151
Node 79	-----------AAAAyKTGAAhAwTrTTCAArT--------			Collection_1::4_motifs	PSSM	20.97	46
Node 80	---------ACTTATAAwTACTTAwwAAtG-----------			Collection_1::6_motifs	PSSM	20.68	24
Node 81	wwwwywwymAwwAwCawwmAaAAwcaaTCAwwwt-------			Collection_1::40_motifs	PSSM	16.17	497
Node 82	--------------CTTTCrwTTtrTTTCkwwTbGAAAsTT			Collection_1::16_motifs	PSSM	21.35	168
Node 83	wwwwywwtmAwaawCawwmamrAwCawTCAwwwt-------			Collection_1::49_motifs	PSSM	14.24	683
Node 84	-------ttwTGTtAtwwwaaTmACAwwa------------			Collection_1::6_motifs	PSSM	12.31	93
Node 85	wwwwywwtmAwawwCawwmamaAwcawTcAwwwt-------			Collection_1::55_motifs	PSSM	14.03	707
Node 86	wwwwywwtmAwawwCawtmAmaAwcawTCAwwwt-------			Collection_1::59_motifs	PSSM	13.87	752
Node 87	wwwwywwtmAwawwCwwtmahwwwcwwTCAwwtyGAAAsTT			Collection_1::75_motifs	PSSM	20.39	906
Node 88	-------twwTGTtAtwwwamTaACAwwa------------			Collection_1::10_motifs	PSSM	10.69	110
Node 89	wWwwywwtaAwwwwCwwtmahwwwcwwTCAwwtyGAAAsTT			Collection_1::77_motifs	PSSM	20.24	923
Node 90	--------TCTTTTrACAACAttrwTGTTGTTwAw------			Collection_1::6_motifs	PSSM	21.71	49
Node 91	wWwwywwtaAwwwwCwwtmawwwwcwwTcAwwwwdAAAsTT			Collection_1::83_motifs	PSSM	18.84	972
Node 92	wWwwywwtwAwdwwcwwwmamwwwcwwTcAwwwwdAAAsTT			Collection_1::93_motifs	PSSM	18.28	1082
Node 93	wWwwywwtwAwdwwcwwwmamwwwcwwTcawwwwkAAAsTT			Collection_1::94_motifs	PSSM	18.19	1116

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)
Collection_1_m53_TESPQTRR_GlpR_RP	TESPQTRR_GlpR_RP	cluster_1	Collection_1	41	12.21	38	++++++++++TKWTCGWTWWCGMRCA+++++++++++++++	+++++++++++++++TGykCGwwAwCGAwMA++++++++++
Collection_1_m89_VNSKVTRK_PflR_21bp_RP	VNSKVTRK_PflR_21bp_RP	cluster_1	Collection_1	41	17.86	16	++++++++AmGWAAbwwWwwyAATTwCGw++++++++++++	++++++++++++WCGWAATTRWWWWWVTTWCKT++++++++
Collection_1_m94_VSSESTRR_FruR_RP	VSSESTRR_FruR_RP	cluster_1	Collection_1	41	15.03	7	++++++++++YTMTSHWWMMATWTYHWTCA+++++++++++	+++++++++++TGAwdrAwATkkwWdsAKAr++++++++++
Collection_1_m98_VTSDMTRR_LacR_RP	VTSDMTRR_LacR_RP	cluster_1	Collection_1	41	18.30	4	++++++++wywAAAbAAnAmyrAAmAh++++++++++++++	++++++++++++++DTKTTYRKTNTTVTTTWRW++++++++
Collection_1_m88_VNSESTRR_FruR_RP	VNSESTRR_FruR_RP	cluster_1	Collection_1	41	19.33	7	++++++++++TMYTCRKTCADYATYRKTCA+++++++++++	+++++++++++TGAmyrATrhTGAmyGArkA++++++++++
Collection_1_m3_TESKETRR_FucR	TESKETRR_FucR	cluster_2	Collection_1	36	22.69	74	aTGmCCGTTTTarwwwwwwwwwwytAAAACGGkCAt	ATGMCCGTTTTARWWWWWWWWWWYTAAAACGGKCAT
Collection_1_m76_VGSEATRR_RhaR_RP	VGSEATRR_RhaR_RP	cluster_1	Collection_1	41	11.59	5	++++++++++YRATCRWNNNYGATCRT++++++++++++++	++++++++++++++ayGAtCrnnnwyGATyr++++++++++
Collection_1_m71_VESSVTRN_AgaR_RP	VESSVTRN_AgaR_RP	cluster_1	Collection_1	41	25.48	12	++++++++++++++CTTTCryTTtRTTTyyAAtYGAAAs++	++STTTCRATTRRAAAYAAARYGAAAG++++++++++++++
Collection_1_m33_ISTDMTRR_LacR_RP	ISTDMTRR_LacR_RP	cluster_1	Collection_1	41	20.10	4	++++++++AwwAAACAwnmAwAAAyrA++++++++++++++	++++++++++++++TYRTTTWTKNWTGTTTWWT++++++++
Collection_1_m13_AASQRTYR_SO1758_RP	AASQRTYR_SO1758_RP	cluster_1	Collection_1	41	18.53	3	++++++++RYYKRVARCAKGSKGKMHGC+++++++++++++	+++++++++++++GCdkmCmsCmTGyTbymrry++++++++
Collection_1_m73_VESSVTRS_AgaR2_RP	VESSVTRS_AgaR2_RP	cluster_1	Collection_1	41	27.73	2	++++++++++++++CTTTCGWWWSMTTTCRWWKTWWSYTTW	wAArswwAmwwyGAAAkswwwCGAAAG++++++++++++++
Collection_1_m83_VKSEVTRS_RhaR_RP	VKSEVTRS_RhaR_RP	cluster_1	Collection_1	41	12.36	8	+++++++++++++++TKTCRANNNNTKWCRA++++++++++	++++++++++TYGwMAnnnnTyGAmA+++++++++++++++
Collection_1_m55_TESRETRR_FucR_RP	TESRETRR_FucR_RP	cluster_2	Collection_1	36	30.64	4	WTGMCCGWWYDHRWHDAWWHHKBVBHAWDCGGKCAW	WTGMCCGhWTdvbvmddWwThdWYdhRWWCGGkCAw
Collection_1_m95_VSSEVTRS_AgaR_RP	VSSEVTRS_AgaR_RP	cluster_1	Collection_1	41	17.61	3	++++++++++++++CTTTYAWTWKSTTTC++++++++++++	++++++++++++GAAAsmwAwTrAAAG++++++++++++++
Collection_1_m16_AKSTRTYR_SO1758_RP	AKSTRTYR_SO1758_RP	cluster_1	Collection_1	41	27.73	1	++++++++ACTGACACTACGCTGTCAGT+++++++++++++	+++++++++++++ACTGACAGCGTAGTGTCAGT++++++++
Collection_1_m54_TESRDTRR_GlcR_RP	TESRDTRR_GlcR_RP	cluster_1	Collection_1	41	23.57	1	+++++++++ACTTATAATTACTTATA+++++++++++++++	+++++++++++++++TATAAGTAATTATAAGT+++++++++
Collection_1_m58_TSSSSTRR_FucR_RP	TSSSSTRR_FucR_RP	cluster_1	Collection_1	41	26.34	1	++++++++++++++TCGTCAATTTTCTTCACAG++++++++	++++++++CTGTGAAGAAAATTGACGA++++++++++++++
Collection_1_m50_SKSESTRR_FruR_RP	SKSESTRR_FruR_RP	cluster_1	Collection_1	41	20.42	11	+++++++++++AAAMCGTCAAAARMMACYYA++++++++++	++++++++++TRRGTKKYTTTTGACGKTTT+++++++++++
Collection_1_m100_VTTEETRR_RhaR_RP	VTTEETRR_RhaR_RP	cluster_1	Collection_1	41	20.79	2	+++++++CAAwAAwrAwmAAmmAArA+++++++++++++++	+++++++++++++++TYTTKKTTKWTYWTTWTTG+++++++
Collection_1_m27_IKSESTRR_FruR_RP	IKSESTRR_FruR_RP	cluster_1	Collection_1	41	22.03	16	++++++++++AAAACCTTCAAAAWCYGTCA+++++++++++	+++++++++++TGACrGWTTTTGAAGGTTTT++++++++++
Collection_1_m79_VGTTETRR_FruR_RP	VGTTETRR_FruR_RP	cluster_3	Collection_1	14	15.59	3	TTCCrmwwkyGGAA	TTCCRMWWKYGGAA
Collection_1_m5_VESPATRR_UlaR	VESPATRR_UlaR	cluster_1	Collection_1	41	16.97	22	+++++++++++DWWTAWTCAAAWTTAATCWYWWT+++++++	+++++++awwrWGATTaaWTTTGAWTAwwh+++++++++++
Collection_1_m12_LDSKNTRR_IolR	LDSKNTRR_IolR	cluster_1	Collection_1	41	17.07	32	+++++++++wTWAyMAAAAaATaAYCAAaA+++++++++++	+++++++++++TTTTGRTTATTTTTTKRTWAW+++++++++
Collection_1_m99_VTSESTRR_FruR_RP	VTSESTRR_FruR_RP	cluster_1	Collection_1	41	20.97	7	++++++++++AAWTCAATCATWTTMAWTCA+++++++++++	+++++++++++TGAwTkAAWaTGATTGAwTT++++++++++
Collection_1_m30_IQSESTRR_FruR_RP	IQSESTRR_FruR_RP	cluster_1	Collection_1	41	22.47	7	++++++++++AWAWCWWTCAAAWTCWTTCA+++++++++++	+++++++++++TGAAWGAWTTTGAwwGwTWT++++++++++
Collection_1_m75_VETGTTRK_SrlR_RP	VETGTTRK_SrlR_RP	cluster_1	Collection_1	41	26.42	6	+ATCTTTCAwtTTrmrATmwwTwTmwywCw+++++++++++	+++++++++++WGWRWKAWAWWKATYKYAAAWTGAAAGAT+
Collection_1_m51_SQSESTRR_FruR_RP	SQSESTRR_FruR_RP	cluster_1	Collection_1	41	21.97	13	++++++++++AAAACAKTCAWAAACAATCA+++++++++++	+++++++++++TGATTGtTTWTGAmTGTTTT++++++++++
Collection_1_m90_VNSTMTRR_LacR_RP	VNSTMTRR_LacR_RP	cluster_1	Collection_1	41	25.18	15	++++++++AAGRAACAAAAWCAAACAA++++++++++++++	++++++++++++++TTGTTTGWTTTTGTTYCTT++++++++
Collection_1_m26_IKSDMTRR_LacR_RP	IKSDMTRR_LacR_RP	cluster_1	Collection_1	41	12.46	4	++++++++wwbdwwbAAnwwddwwsww++++++++++++++	++++++++++++++WWSWWHHWWNTTVWWHVWW++++++++
Collection_1_m78_VGTSETRR_FruR_RP	VGTSETRR_FruR_RP	cluster_3	Collection_1	14	19.41	1	GTCCCCAACGGGAA	TTCCCGTTGGGGAC
Collection_1_m47_RRGLLKVH_GalR_RP	RRGLLKVH_GalR_RP	cluster_1	Collection_1	41	17.33	4	++++++++++TGAACATNNNMGMACAW++++++++++++++	++++++++++++++wTGTkCknnnATGTTCA++++++++++
Collection_1_m24_IESISTRR_FruR_RP	IESISTRR_FruR_RP	cluster_1	Collection_1	41	20.51	28	++++++++++ATCTCTTACTAATTTCATCA+++++++++++	+++++++++++TGATGAAATTAGTAAGAGAT++++++++++
Collection_1_m6_VNSTVTRN_AgaR	VNSTVTRN_AgaR	cluster_1	Collection_1	41	16.39	81	++++++++++++++CTTTCRTTTyrTTTYkwTTk+++++++	+++++++MAAWMRAAAYRAAAYGAAAG++++++++++++++
Collection_1_m35_LDSESTRR_FruR_RP	LDSESTRR_FruR_RP	cluster_1	Collection_1	41	17.89	9	++++++++++AWKTCWWKCATWWTCTWTCA+++++++++++	+++++++++++TGAwAGAwwaTGmwwGAmwt++++++++++
Collection_1_m57_TQSHETRR_FucR_RP	TQSHETRR_FucR_RP	cluster_2	Collection_1	36	49.91	1	CTGCCCGTTTGCGCTGCAAACCGCGCAAACGGGCAG	CTGCCCGTTTGCGCGGTTTGCAGCGCAAACGGGCAG
Collection_1_m91_VNSTVTRN_AgaR_RP	VNSTVTRN_AgaR_RP	cluster_1	Collection_1	41	13.87	18	++++++++++++++CTTTCrtTTTvTTTC++++++++++++	++++++++++++GAAABAAAAYGAAAG++++++++++++++
Collection_1_m42_LQSESSRR_FruR_RP	LQSESSRR_FruR_RP	cluster_1	Collection_1	41	22.12	15	++++++++++TAAATAGTCAAAAAAAGTCA+++++++++++	+++++++++++TGACTTTTTTTGACTATTTA++++++++++
Collection_1_m74_VESTVTRS_AgaR_RP	VESTVTRS_AgaR_RP	cluster_1	Collection_1	41	20.30	8	++++++++++++++TTTTCGAATATTTTCG+++++++++++	+++++++++++CGAAAATATTCGAAAA++++++++++++++
Collection_1_m85_VKSTTARD_SufR_RP	VKSTTARD_SufR_RP	cluster_1	Collection_1	41	19.07	4	++++++++DVKMTWKTSWMWAWAAAAA++++++++++++++	++++++++++++++TTTTTWTWKWSAMWAKmbh++++++++
Collection_1_m31_IRSTTARE_SufR_RP	IRSTTARE_SufR_RP	cluster_1	Collection_1	41	26.34	1	++++++++CGGCTATTGTCAATAAAAA++++++++++++++	++++++++++++++TTTTTATTGACAATAGCCG++++++++
Collection_1_m10_TESRDTRR_GlcR	TESRDTRR_GlcR	cluster_1	Collection_1	41	23.27	4	+++++++++RCTTAwAWTyACTTAwwRAT++++++++++++	++++++++++++ATYWWTAAGTRAWTWTAAGY+++++++++
Collection_1_m14_AESRDTRR_GlcR_RP	AESRDTRR_GlcR_RP	cluster_1	Collection_1	41	23.57	1	+++++++++ACTTATAATTACTTACA+++++++++++++++	+++++++++++++++TGTAAGTAATTATAAGT+++++++++
Collection_1_m41_LQSASTRR_FruR_RP	LQSASTRR_FruR_RP	cluster_1	Collection_1	41	18.67	17	++++++++++WWWWCAATCAMAAACWATCA+++++++++++	+++++++++++TGAtWGTTTkTGATTGwwww++++++++++
Collection_1_m45_MKSESTRR_FruR_RP	MKSESTRR_FruR_RP	cluster_1	Collection_1	41	24.31	7	++++++++++AAATATTYCAAAAACRWTCA+++++++++++	+++++++++++TGAWYGTTTTTGRAATATTT++++++++++
Collection_1_m86_VKSTTARE_SufR_RP	VKSTTARE_SufR_RP	cluster_1	Collection_1	41	19.26	5	++++++++CATTTTYTGTCAATAAAAT++++++++++++++	++++++++++++++ATTTTATTGACArAAAAtg++++++++
Collection_1_m19_AQSPQARR_SufR_RP	AQSPQARR_SufR_RP	cluster_1	Collection_1	41	21.75	7	+++++++++++TTWARCAACWMRDYKGTTGYTTWA++++++	++++++TWAArCAACmrhykwGTTGyTwAA+++++++++++
Collection_1_m52_TESKETRR_FucR_RP	TESKETRR_FucR_RP	cluster_2	Collection_1	36	31.10	7	WTGMCCGTWTKvRwWrWTwkwmwydArArCGGkCAT	ATGMCCGYTYTHRWKWMWAWYWWYBMAWACGGKCAW
Collection_1_m96_VSSKSTRR_FruR_RP	VSSKSTRR_FruR_RP	cluster_1	Collection_1	41	18.70	3	++++++++++WWHTYHWTCAWWWWHAWTCA+++++++++++	+++++++++++TGAwTdwwwwTGAwdrAdww++++++++++
Collection_1_m7_IQSESTRR_FruR	IQSESTRR_FruR	cluster_1	Collection_1	41	21.20	48	+++WCAWTCAWAWWCATTCAWWAWCAATCAWWW++++++++	++++++++wwwTGAtTGwTWwTGAAtGwwTwTGAwTgw+++
Collection_1_m63_VASTVTRN_AgaR_RP	VASTVTRN_AgaR_RP	cluster_1	Collection_1	41	11.42	3	++++++++++++++mwwwsrwwwTrwwdk++++++++++++	++++++++++++MHWWYAWWWYSWWWK++++++++++++++
Collection_1_m34_ITSAMTRR_GalR_RP	ITSAMTRR_GalR_RP	cluster_1	Collection_1	41	14.31	13	++++++++++YGMACAWNNNCGCACAY++++++++++++++	++++++++++++++rTGTGCGnnnwTGTKCR++++++++++
Collection_1_m62_VASEVTRS_AgaR_RP	VASEVTRS_AgaR_RP	cluster_1	Collection_1	41	18.88	3	++++++++++++++CYTTCAAAMASTTTC++++++++++++	++++++++++++GAAAsTkTTTGAArG++++++++++++++
Collection_1_m2_LKSEMTRR_DeoR	LKSEMTRR_DeoR	cluster_1	Collection_1	41	14.35	50	+++++++twwTGTkAktwwamTmACAwwa++++++++++++	++++++++++++TWWTGTKAKTWWAMTMACAWWA+++++++
Collection_1_m37_LESESTRR_FruR__RP	LESESTRR_FruR__RP	cluster_1	Collection_1	41	17.17	21	++++++++++WWDTCWAKCAWWWTCTWYCA+++++++++++	+++++++++++TGrwAGAwwwTGmTwGAhww++++++++++
Collection_1_m21_AQTPQARR_SufR_RP	AQTPQARR_SufR_RP	cluster_1	Collection_1	41	21.18	7	+++++++++++TWWRRCAACWWWADKGTTGTTWWW++++++	++++++wwwAACAACmhTwwWGTTGYywwA+++++++++++
Collection_1_m87_VNSDMTRR_LacR_RP	VNSDMTRR_LacR_RP	cluster_1	Collection_1	41	14.58	20	++++++++AwhAAAMAAnAAhAAACAA++++++++++++++	++++++++++++++TTGTTTDTTNTTKTTTDWT++++++++
Collection_1_m9_LQSASTRR_FruR	LQSASTRR_FruR	cluster_1	Collection_1	41	26.65	29	WWWTYTWYCAWWWWCAWTCAAAAACAATCA+++++++++++	+++++++++++TGAtTGTTTTTGAwTGwwwwTGrwarawww
Collection_1_m67_VDTGTTRK_SrlR_RP	VDTGTTRK_SrlR_RP	cluster_1	Collection_1	41	32.87	11	+ATCTTTCAAAkTGTGATCTATwTrmrAyA+++++++++++	+++++++++++TRTYKYAWATAGATCACAMTTTGAAAGAT+
Collection_1_m80_VHSDMTRR_LacR_RP	VHSDMTRR_LacR_RP	cluster_1	Collection_1	41	20.79	4	++++++++AACAAACAwnwwysAACAw++++++++++++++	++++++++++++++WTGTTSRWWNWTGTTTGTT++++++++
Collection_1_m65_VDSEVTRK_GlmR_RP	VDSEVTRK_GlmR_RP	cluster_1	Collection_1	41	22.82	8	++++++++++++++++++++++AyCTTTCGAwWCGAAAsTT	AASTTTCGWWTCGAAAGRT++++++++++++++++++++++
Collection_1_m44_MKAPSTRR_IolR_RP	MKAPSTRR_IolR_RP	cluster_1	Collection_1	41	24.93	10	++++++++TCTTTTCTAAGCATGRATGTCA+++++++++++	+++++++++++TGACATyCATGCTTAGAAAAGA++++++++
Collection_1_m38_LHSESTRR_FruR_RP	LHSESTRR_FruR_RP	cluster_1	Collection_1	41	22.15	9	++++++++++AAATCAATCATAAAATYTCA+++++++++++	+++++++++++TGAratTTTATGATTGATTT++++++++++
Collection_1_m66_VDSISTRR_FruR_RP	VDSISTRR_FruR_RP	cluster_1	Collection_1	41	22.00	3	++++++++++AAWWMAWTCAAWWWMRTTCA+++++++++++	+++++++++++TGAAykwwwTTGAwTkwwTT++++++++++
Collection_1_m81_VKSDMTRR_LacR_RP	VKSDMTRR_LacR_RP	cluster_1	Collection_1	41	8.73	17	++++++++wwtwwAmwwnwwrwwwyAw++++++++++++++	++++++++++++++WTRWWWYWWNWWKTWWAWW++++++++
Collection_1_m59_VASAVTRA_AgaR_RP	VASAVTRA_AgaR_RP	cluster_1	Collection_1	41	16.64	1	++++++++++++++CTTTCG-------------CGAAAG++	++CTTTCG-------------CGAAAG++++++++++++++
Collection_1_m70_VESRDTRR_GlcR_RP	VESRDTRR_GlcR_RP	cluster_1	Collection_1	41	17.58	10	+++++++++ACTTATAAwTAMTTAww+++++++++++++++	+++++++++++++++WWTAAKTAWTTATAAGT+++++++++
Collection_1_m32_ISSEMTYR_YcnK_RP	ISSEMTYR_YcnK_RP	cluster_1	Collection_1	41	13.97	5	+++++++++++AWAWKKKGARWRWDDKK+++++++++++++	+++++++++++++MMhhWYWYtCMMMWTWT+++++++++++
Collection_1_m8_ISSEMTYR_CutR	ISSEMTYR_CutR	cluster_1	Collection_1	41	17.93	10	+++++++++++AAWATGTGAAAAWRTG++++++++++++++	++++++++++++++CAywTTTTCACATWTT+++++++++++
Collection_1_m49_SFSESTRR_FruR_RP	SFSESTRR_FruR_RP	cluster_1	Collection_1	41	25.65	2	++++++++++WAAACAATCAWAAACAWTCA+++++++++++	+++++++++++TGAwTGTTTwTGATTGTTTw++++++++++
Collection_1_m46_MKSMITRR_RhaR_RP	MKSMITRR_RhaR_RP	cluster_1	Collection_1	41	19.12	6	++++++++++YTATCAWWAWWWTATCAAMW+++++++++++	+++++++++++wktTGATAwwwTwwTGATAr++++++++++
Collection_1_m29_IQSEATRR_RhaR_RP	IQSEATRR_RhaR_RP	cluster_1	Collection_1	41	13.98	8	++++++++++YRATCRWNNNYGATYRW++++++++++++++	++++++++++++++wyrATCrnnnwyGATyr++++++++++
Collection_1_m28_IKSTTARE_SufR_RP	IKSTTARE_SufR_RP	cluster_1	Collection_1	41	26.34	1	++++++++TATCTATTGTCAATAAAAA++++++++++++++	++++++++++++++TTTTTATTGACAATAGATA++++++++
Collection_1_m36_LDSKNTRR_IolR_RP	LDSKNTRR_IolR_RP	cluster_1	Collection_1	41	13.11	8	++++++++++wmwmywrrwwAwswyYwrrwhd+++++++++	+++++++++HDWYYWRRWSWTWWYYWRKWKW++++++++++
Collection_1_m1_IDSTQTRR_CsqR	IDSTQTRR_CsqR	cluster_1	Collection_1	41	25.36	34	+++++++++++AAAAAKTGACRSSYGTCAMTTTTT++++++	++++++AAAAAkTGACrssyGTCAmTTTTT+++++++++++
Collection_1_m20_AQSTRTYR_SO1758_RP	AQSTRTYR_SO1758_RP	cluster_1	Collection_1	41	24.13	12	++++++++ACTGACATMAWCMTGTCAGT+++++++++++++	+++++++++++++ACTGACAKGwTkaTGTCAGT++++++++
Collection_1_m40_LNDLGEEQ_FruR_RP	LNDLGEEQ_FruR_RP	cluster_1	Collection_1	41	27.73	1	++++++++++AAATCTATCAAATTCTACCA+++++++++++	+++++++++++TGGTAGAATTTGATAGATTT++++++++++
Collection_1_m77_VGSRDTRR_GlcR_RP	VGSRDTRR_GlcR_RP	cluster_1	Collection_1	41	21.58	6	+++++++++ACTTATAAATACTTATw+++++++++++++++	+++++++++++++++WATAAGTATTTATAAGT+++++++++
Collection_1_m4_TESPQTRR_GlpR	TESPQTRR_GlpR	cluster_1	Collection_1	41	16.00	84	+++++++wwATGwKCGwwwwCGMwCATww++++++++++++	++++++++++++WWATGWKCGWWWWCGMWCATWW+++++++
Collection_1_m18_ALSPQARR_SufR_RP	ALSPQARR_SufR_RP	cluster_1	Collection_1	41	24.81	19	+++++++++++TTWRACAACAWYGTTGTTGTTAAT++++++	++++++ATTAACAACAAcrWTGTTGTyWAA+++++++++++
Collection_1_m23_EKEVTIKD_GlmR_RP	EKEVTIKD_GlmR_RP	cluster_1	Collection_1	41	26.34	1	++++++++++++++++++++++ATCTTTCGAAACGAAACTT	AAGTTTCGTTTCGAAAGAT++++++++++++++++++++++
Collection_1_m92_VPSEATRR_RhaR_RP	VPSEATRR_RhaR_RP	cluster_1	Collection_1	41	11.29	12	++++++++++YRATCRWNNNYRWTYRW++++++++++++++	++++++++++++++wYRAWyrnnnwYGATyR++++++++++
Collection_1_m84_VKSTSTRR_FucR_RP	VKSTSTRR_FucR_RP	cluster_1	Collection_1	41	22.87	30	++++++++++++++AYTTGAAYAWTRTTCAART++++++++	++++++++AyTTGAAyAwTrTTCAArT++++++++++++++
Collection_1_m56_TNSDMTRR_LacR_RP	TNSDMTRR_LacR_RP	cluster_1	Collection_1	41	16.16	14	+++++++++++AACAAWWAWTCAACA+++++++++++++++	+++++++++++++++TGTTGAWTwwTTGTT+++++++++++
Collection_1_m68_VESEVTRK_GlmR_RP	VESEVTRK_GlmR_RP	cluster_1	Collection_1	41	21.67	8	++++++++++++++++++++++wwmTTTCGwwTYGAAACTT	AAGTTTCRAWWCGAAAKWW++++++++++++++++++++++
Collection_1_m43_LQSESTRR_FruR_RP	LQSESTRR_FruR_RP	cluster_1	Collection_1	41	17.75	11	++++++++++AWWWCWWTCAWAWWCAWTCA+++++++++++	+++++++++++TGAwTGwWTwTGAwWGWwwT++++++++++
Collection_1_m22_AVSPQARR_SufR_RP	AVSPQARR_SufR_RP	cluster_1	Collection_1	41	26.44	3	+++++++++++TTTRACAACWDWWTKSTTGYTWWA++++++	++++++TwwArCAAsmAwwhwGTTGTyAAA+++++++++++
Collection_1_m61_VASEATRR_RhaR_RP	VASEATRR_RhaR_RP	cluster_1	Collection_1	41	12.46	8	++++++++++YGAKCRWNNNYGATYRW++++++++++++++	++++++++++++++wyrATCrnnnwyGmTCr++++++++++
Collection_1_m48_SASLQARR_SufR_RP	SASLQARR_SufR_RP	cluster_1	Collection_1	41	26.62	3	+++++++++++TTKRACAACAYHRAYGTTGYYHAA++++++	++++++TTdrrCAACrTydrTGTTGTymAA+++++++++++
Collection_1_m17_AKTTMGRQ_AzrR_RP	AKTTMGRQ_AzrR_RP	cluster_1	Collection_1	41	22.18	2	++++++++++CTTTACWWKRTTWWRTAARG+++++++++++	+++++++++++CyTTAywwAAymwwGTAAAG++++++++++
Collection_1_m15_AKSSRTYR_SO1758_RP	AKSSRTYR_SO1758_RP	cluster_1	Collection_1	41	27.73	1	++++++++ACTGACACTAGGCTGTCAGT+++++++++++++	+++++++++++++ACTGACAGCCTAGTGTCAGT++++++++
Collection_1_m60_VASDMTRR_LacR_RP	VASDMTRR_LacR_RP	cluster_1	Collection_1	41	19.41	4	++++++++rAmAAAwAmnAwsrAAwAA++++++++++++++	++++++++++++++TTWTTYSWTNKTWTTTKTY++++++++
Collection_1_m64_VDSAVTRH_AgaR_RP	VDSAVTRH_AgaR_RP	cluster_1	Collection_1	41	14.39	7	++++++++++++++CTTTCRyTTYrTKYm++++++++++++	++++++++++++KRMAYRAARYGAAAG++++++++++++++
Collection_1_m11_VSTEETRR_RhaR	VSTEETRR_RhaR	cluster_1	Collection_1	41	16.52	23	++++++++WAAAWWCAAAMAWAAACAAA+++++++++++++	+++++++++++++TTTGTTTwtKTTTGwWTttw++++++++
Collection_1_m72_VESSVTRS_AgaR_RP	VESSVTRS_AgaR_RP	cluster_1	Collection_1	41	27.73	2	++++++++++++++yTTTCrsTTsAkkkCsAwyCGAAAG++	++CTTTCGRWTSGMMMTSAASYGAAAR++++++++++++++
Collection_1_m25_IHSESTRR_FruR_RP	IHSESTRR_FruR_RP	cluster_1	Collection_1	41	18.34	18	++++++++++WWWWMAWYCAAAAWCAATCA+++++++++++	+++++++++++TGATTGwTTTTGrwTkWwww++++++++++
Collection_1_m93_VQSEATRR_RhaR_RP	VQSEATRR_RhaR_RP	cluster_1	Collection_1	41	12.51	16	++++++++++YRATCRWNNNYGATYRW++++++++++++++	++++++++++++++wyrATCrnnnwyGATyr++++++++++
Collection_1_m82_VKSEVTRN_RhaR_RP	VKSEVTRN_RhaR_RP	cluster_1	Collection_1	41	14.09	4	+++++++++++++++TKTCRANNNNTKTCRA++++++++++	++++++++++TyGAmAnnnnTyGAmA+++++++++++++++
Collection_1_m39_LKSEMTRR_DeoR_RP	LKSEMTRR_DeoR_RP	cluster_1	Collection_1	41	12.21	32	++++++++++TGTTAkwAWamTmACA+++++++++++++++	+++++++++++++++TGTKAKTWTWMTAACA++++++++++
Collection_1_m97_VSTEETRR_RhaR_RP	VSTEETRR_RhaR_RP	cluster_1	Collection_1	41	19.99	7	+++++++CAAAAAwAAACAAAmATrA+++++++++++++++	+++++++++++++++TYATKTTTGTTTWTTTTTG+++++++
Collection_1_m69_VESPATRR_UlaR_RP	VESPATRR_UlaR_RP	cluster_1	Collection_1	41	17.15	7	++++++++++YKAWTWDTYWWDADTAATCM+++++++++++	+++++++++++KGATTAhThwwRAhwAwTmr++++++++++

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Heatmap View

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

RSAT - matrix-clustering result

Analysis: deor (17/08/2026 14:08)

Command

Results Summary

Clusters Summary Table

Individual Cluster View

Branch Motifs

Branch Motifs

Branch Motifs

Definitions

Individual Motif View

Heatmap View

Exported files