genome.fa.s2070.2.7.7.80.10.50.1000.3.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01002070.1 Hibiscus syriacus cultivar Beakdansim tig00004227_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  812484

Tables:   1   2   3   4   

This is table  3  of  4  ( 382 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
497368--497418	23	2.3	22	86	6	75	9	13	13	62	1.54
504072--504126	22	2.5	22	93	3	92	30	12	16	40	1.86
504893--504976	20	4.2	20	87	0	105	28	17	19	34	1.95
505215--505496	139	2.0	141	80	4	320	36	15	19	28	1.92
505935--505981	20	2.5	20	89	6	71	44	0	2	53	1.12
505935--505990	10	6.0	10	78	10	57	41	0	1	57	1.09
526274--526404	61	2.2	60	82	8	158	25	18	29	27	1.98
529135--529407	55	5.0	55	90	1	406	36	10	16	36	1.83
529135--529407	109	2.5	109	90	3	422	36	10	16	36	1.83
536278--536311	15	2.2	16	89	5	52	47	0	5	47	1.26
540101--540129	15	1.9	15	100	0	58	13	6	44	34	1.71
552598--552637	9	4.4	9	83	0	53	0	10	15	75	1.05
552598--552638	10	4.4	10	82	14	52	0	9	14	75	1.04
558720--558772	20	2.7	20	87	0	79	20	24	13	41	1.88
561250--561291	21	2.0	21	95	0	75	26	28	21	23	1.99
561419--561459	21	2.0	21	90	9	66	17	29	36	17	1.92
561521--561690	81	2.1	81	96	0	313	44	7	10	37	1.66
568916--568954	2	20.0	2	94	5	71	51	0	0	48	1.00
577298--577349	19	2.7	20	84	6	79	30	19	23	26	1.98
585962--586030	30	2.3	30	82	2	75	42	13	5	39	1.68
587169--587211	20	2.2	20	83	8	52	23	20	9	46	1.79
587635--587700	18	3.4	18	72	17	53	39	3	1	56	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592286--592335	14	3.4	14	81	15	57	74	0	0	26	0.83
592286--592342	15	3.8	14	72	22	53	73	0	0	26	0.83
592899--592951	21	2.4	22	90	9	90	26	0	3	69	1.05
596658--596691	12	2.8	12	90	0	50	35	2	41	20	1.68
597061--597097	19	1.9	19	94	0	65	37	13	5	43	1.67
597062--597111	20	2.6	19	87	3	64	40	10	6	44	1.63
601271--601315	19	2.3	20	92	3	74	37	13	6	42	1.70
601271--601321	20	2.6	19	90	3	75	37	13	5	43	1.69
603013--603068	28	2.0	28	100	0	112	28	28	21	21	1.99
610255--610302	21	2.3	21	92	0	78	56	29	0	14	1.39
610584--610631	22	2.2	22	85	7	62	60	12	16	10	1.58
610623--610654	16	2.1	15	94	5	55	78	0	18	3	0.89
611519--611552	10	3.3	10	92	8	59	0	17	0	82	0.67
611534--611593	23	2.5	24	81	5	68	8	13	11	66	1.44
617802--617833	16	2.0	16	100	0	64	43	6	18	31	1.75
619933--620006	5	14.8	5	69	25	50	4	17	2	75	1.07
619930--619978	16	3.1	17	77	11	50	4	18	2	75	1.06
619930--619968	11	3.6	11	86	6	53	2	20	0	76	0.90
619935--620006	27	2.6	28	75	16	69	4	18	2	75	1.09
621397--621428	16	2.0	16	100	0	64	43	6	18	31	1.75
624385--624445	22	2.7	22	73	26	56	63	0	16	19	1.30
637084--637135	23	2.2	23	82	3	59	34	19	21	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
637096--637147	23	2.3	23	100	0	104	32	21	17	28	1.96
638394--638436	20	2.2	20	87	4	61	34	9	6	48	1.62
638845--638886	20	2.2	20	86	4	59	19	11	0	69	1.19
639128--639181	13	4.2	12	77	13	54	75	3	18	1	1.03
643561--643620	30	2.0	31	86	3	86	28	8	10	53	1.63
644916--644956	19	2.0	21	86	9	59	19	14	0	65	1.26
648713--650060	675	2.0	675	95	0	2430	33	14	17	35	1.90
650446--650482	15	2.4	16	90	4	58	18	10	0	70	1.16
650441--650485	15	2.8	16	80	10	56	20	11	0	68	1.19
650824--650880	11	5.4	11	76	16	57	84	8	7	0	0.79
650843--650891	12	4.2	12	87	10	66	77	10	12	0	0.99
650824--650898	31	2.5	30	80	10	82	78	12	9	0	0.96
650823--650898	22	3.6	22	77	6	70	77	13	9	0	0.99
655976--656037	11	5.2	12	88	9	92	91	8	0	0	0.40
655976--656037	20	3.2	19	90	9	90	91	8	0	0	0.40
655976--656037	1	62.0	1	83	0	79	91	8	0	0	0.40
658120--658188	33	2.1	33	83	5	86	31	1	36	30	1.67
658159--658260	36	2.9	36	89	1	152	28	4	34	32	1.79
662526--662594	33	2.1	33	83	5	86	31	1	36	30	1.67
662580--662665	13	7.2	12	72	22	58	29	3	37	30	1.74
662565--662666	36	2.9	36	94	1	170	26	4	36	32	1.78
664200--664242	23	1.9	21	81	13	50	34	13	18	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664814--664869	21	2.5	22	80	11	69	66	0	16	17	1.26
664801--664869	23	3.0	22	72	27	63	63	0	17	18	1.31
666661--666699	19	2.1	19	90	0	60	28	28	10	33	1.90
667835--667883	16	2.9	16	84	6	53	61	0	22	16	1.34
673646--673674	15	2.0	15	93	6	51	0	20	3	75	0.94
675529--675567	13	3.0	13	78	14	53	0	12	5	82	0.83
676326--676369	22	2.0	21	82	4	52	29	2	29	38	1.69
676722--676772	19	2.6	20	90	3	77	43	5	15	35	1.71
681282--681310	15	2.0	15	93	6	51	75	3	20	0	0.94
687292--687345	23	2.3	25	75	12	60	5	16	3	74	1.16
687665--687708	22	2.0	21	86	4	61	25	2	34	38	1.68
688061--688111	19	2.6	20	90	3	77	43	5	15	35	1.71
689010--689069	30	2.0	31	83	3	77	51	10	8	30	1.64
692820--692862	5	8.6	5	92	0	68	81	2	16	0	0.79
710448--710501	23	2.2	24	83	6	65	59	14	14	11	1.62
712825--712859	6	5.7	6	86	6	52	2	14	0	82	0.77
712825--712859	13	2.8	12	87	8	52	2	14	0	82	0.77
717467--717507	15	2.6	16	78	21	50	53	0	29	17	1.44
723608--723991	193	2.0	193	92	1	644	39	13	14	33	1.84
724903--724986	35	2.4	36	82	9	102	35	2	30	30	1.71
724923--725018	35	2.7	36	85	1	122	35	2	33	29	1.69
725286--725317	16	2.0	16	100	0	64	31	18	6	43	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
728594--728707	35	3.2	35	87	3	149	31	3	35	28	1.74
728683--728708	13	2.0	13	100	0	52	38	0	38	23	1.55
730956--730997	15	2.7	15	92	7	66	59	0	28	11	1.33
731144--731250	35	3.0	35	84	1	142	32	3	36	27	1.75
733012--733116	36	2.9	35	92	1	165	27	5	37	29	1.80
736944--737041	36	2.7	35	92	1	151	28	5	35	30	1.79
742213--742255	6	7.2	6	89	10	70	0	18	0	81	0.69
742644--742779	35	3.9	35	91	0	191	27	3	37	30	1.74
746002--746047	11	4.0	12	80	11	51	15	13	2	69	1.28
746009--746051	23	1.9	22	90	4	68	13	11	4	69	1.33
747425--747473	19	2.5	20	83	6	55	40	6	14	38	1.71
748366--748425	30	2.0	31	83	3	77	55	10	8	26	1.61
750837--750888	8	6.2	8	85	14	70	0	25	0	75	0.81
750844--750881	5	7.4	5	88	11	51	0	21	0	78	0.74
750846--750881	13	2.8	13	84	16	56	0	22	0	77	0.76
750859--750894	16	2.2	16	90	0	54	2	19	2	75	1.06
751301--751352	19	2.6	20	84	6	61	40	5	15	38	1.71
757237--757284	23	2.1	22	88	3	69	12	10	4	72	1.24
760256--760357	36	2.9	36	91	1	152	28	4	34	32	1.79
764637--764705	33	2.1	33	83	5	86	33	1	36	28	1.67
764676--764781	36	2.9	37	88	5	155	29	3	33	33	1.75
769054--769399	139	2.5	139	82	5	436	47	13	10	28	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
769151--769444	135	2.1	136	84	7	364	49	12	9	27	1.72
771088--771144	29	2.0	29	96	0	105	14	33	31	21	1.92
771215--771270	29	1.9	29	100	0	112	10	39	30	19	1.86
771274--771341	33	2.1	33	88	5	102	8	41	22	27	1.83
771286--771378	10	8.7	10	68	13	51	10	35	29	24	1.89
771287--771391	33	3.2	33	84	1	120	10	34	30	24	1.89
771365--771391	14	1.9	14	100	0	54	7	29	40	22	1.81
783524--784084	138	4.0	139	78	5	551	27	16	27	28	1.97
783492--784084	278	2.1	277	80	2	665	26	16	27	29	1.97
784083--784283	67	3.0	67	88	0	296	38	13	16	30	1.88

Tables:   1   2   3   4