genome.fa.s8296.2.7.7.80.10.50.1000.4.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: VEPZ01008296.1 Hibiscus syriacus cultivar Beakdansim tig00110963_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1205179

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 780 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)
566350--566415	22	3.0	21	79	14	62	80	6	13	0	0.89
567004--567047	22	2.0	22	91	8	72	38	22	11	27	1.88
567994--568117	36	3.4	36	80	6	151	25	20	13	40	1.89
568093--568250	68	2.4	68	84	4	205	31	22	8	36	1.85
568894--569515	105	6.0	105	90	2	912	34	26	17	22	1.96
570063--570164	34	2.8	37	89	10	167	43	14	14	27	1.85
570060--570190	37	3.6	37	83	10	171	41	15	12	29	1.84
570729--570763	16	2.1	18	89	10	56	25	8	0	65	1.21
574247--574314	31	2.2	31	92	5	111	30	8	10	50	1.67
575332--575465	29	4.4	29	78	10	119	54	0	5	39	1.25
575332--575464	61	2.2	60	80	7	153	54	0	6	39	1.25
575733--575766	16	2.1	17	88	5	52	73	0	0	26	0.83
578031--578092	24	2.6	24	84	5	81	14	12	19	53	1.73
579169--579229	16	3.8	16	95	0	95	9	9	21	59	1.58
579181--579233	10	6.1	10	68	31	50	11	7	18	62	1.52
581889--581956	2	34.0	2	100	0	136	50	0	0	50	1.00
606260--606285	5	5.2	5	100	0	52	19	0	0	80	0.71
606394--606445	24	2.3	23	87	9	79	26	7	9	55	1.59
606400--606451	24	2.1	25	92	3	88	32	7	9	50	1.64
610652--610734	41	2.0	41	97	0	157	25	21	18	34	1.96
613332--613385	28	1.9	28	81	7	65	27	11	9	51	1.67
616526--616584	29	2.0	29	100	0	118	38	20	20	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619440--619507	36	1.9	36	90	3	111	33	13	11	41	1.81
619650--619780	67	1.9	70	84	4	178	29	18	12	40	1.87
619654--619787	34	3.9	35	72	12	107	28	17	12	41	1.87
620344--620696	131	2.7	134	80	9	370	24	32	19	23	1.97
622377--622427	21	2.5	21	79	17	54	35	19	1	43	1.63
622453--622511	2	29.5	2	100	0	118	50	0	0	49	1.00
633192--633232	15	2.6	16	85	11	50	56	0	2	41	1.13
635021--635059	19	2.0	20	85	5	53	61	10	5	23	1.48
637883--638025	48	3.0	48	80	10	157	37	28	16	16	1.91
638997--639197	100	2.0	100	87	5	291	39	29	3	26	1.74
652339--652389	16	3.2	16	85	0	66	9	9	21	58	1.58
652345--652391	16	2.9	16	87	0	67	8	12	23	55	1.64
656520--656549	2	15.0	2	100	0	60	50	0	0	50	1.00
656684--656747	28	2.3	28	100	0	128	20	20	18	40	1.91
658849--658939	7	13.0	7	100	0	182	14	42	14	28	1.84
662905--662957	21	2.5	20	82	8	61	24	0	1	73	0.93
667428--667529	36	2.8	36	83	2	125	34	17	11	36	1.87
667566--668022	39	11.8	39	93	0	713	29	18	16	34	1.93
669624--669663	21	2.0	20	85	5	53	25	2	0	72	0.97
671532--671592	31	2.0	31	90	0	95	39	13	21	26	1.90
672817--672949	20	6.5	21	68	17	73	36	23	17	22	1.94
672880--673155	20	13.6	20	73	8	191	38	23	18	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
672880--673152	81	3.4	81	83	5	268	38	23	18	19	1.93
672941--673152	41	5.2	41	90	1	302	37	23	18	19	1.94
672880--673152	40	6.7	41	85	6	299	38	23	18	19	1.93
673694--673772	20	3.9	21	86	5	94	51	17	18	11	1.75
673694--673815	20	6.5	19	75	13	92	49	21	18	10	1.78
673816--673922	20	5.8	19	73	16	109	12	23	17	46	1.82
675939--676005	21	3.2	21	66	6	55	23	35	20	19	1.95
677935--677981	24	2.0	24	91	0	76	31	17	23	27	1.96
677939--677990	24	2.2	24	82	0	59	34	19	21	25	1.96
678834--679006	20	8.6	20	73	2	157	20	18	22	38	1.94
678833--679067	40	5.8	40	82	5	231	20	18	22	38	1.93
679018--679067	20	2.5	20	87	6	66	16	18	22	44	1.87
679013--679130	21	5.8	19	73	10	74	22	17	21	38	1.93
679117--679170	20	2.7	19	75	8	63	16	18	31	33	1.93
695289--696288	336	3.0	336	91	3	1577	42	8	5	43	1.56
696988--697101	32	3.7	32	79	15	150	36	0	0	63	0.95
696986--697101	27	3.7	34	73	20	119	37	0	0	62	0.95
697010--697088	9	8.1	10	75	12	67	41	0	0	58	0.98
697046--697098	23	2.3	23	87	6	72	37	0	0	62	0.96
696988--697097	59	1.9	59	88	7	172	38	0	0	61	0.96
697787--697838	19	2.8	19	85	5	63	21	25	23	30	1.99
702763--702920	21	7.8	20	72	7	86	38	25	17	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
702887--703136	20	12.5	20	81	6	229	37	24	17	20	1.93
703815--703861	24	2.0	24	87	8	69	25	14	21	38	1.92
704036--704060	12	2.1	12	100	0	50	72	0	28	0	0.86
706326--706665	19	19.4	19	78	17	398	46	18	21	13	1.83
706326--706687	33	10.5	33	83	12	234	46	18	21	13	1.84
706354--706580	52	4.2	52	93	3	373	46	16	22	14	1.83
706393--706665	123	2.2	123	92	3	444	46	17	21	14	1.83
706326--706665	52	6.5	55	85	12	322	46	18	21	13	1.83
706573--706627	14	3.6	14	73	21	56	45	23	20	10	1.82
706516--706687	52	3.3	52	83	8	242	45	18	21	13	1.84
706694--706743	20	2.5	20	96	3	93	16	22	18	44	1.87
706850--706886	14	2.6	14	91	0	65	45	21	0	32	1.52
708676--708732	14	3.7	14	77	20	60	45	22	21	10	1.82
708657--708745	33	2.7	33	94	0	160	47	21	20	11	1.81
708620--708745	19	7.1	19	76	17	119	47	23	18	11	1.80
708750--708877	19	7.3	19	73	19	116	8	17	28	45	1.78
708750--708841	33	2.8	33	93	3	150	7	18	28	45	1.76
708925--709385	91	5.1	92	97	2	844	46	19	13	21	1.83
708924--709385	184	2.5	184	95	3	846	46	19	12	21	1.83
711087--711176	14	5.7	14	69	23	63	43	23	23	10	1.83
711079--711193	33	3.5	33	93	0	203	46	20	21	10	1.80
711101--711198	19	5.7	19	70	22	81	44	22	21	11	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
711210--711266	14	3.7	14	75	20	60	8	24	22	43	1.81
711224--711312	19	4.9	19	72	15	89	11	23	20	44	1.83
711194--711312	33	3.4	33	90	6	166	10	22	21	45	1.82
711404--711474	33	2.2	33	94	0	124	47	16	23	11	1.79
711656--711710	22	2.5	22	81	0	74	20	16	40	23	1.91
711857--712050	20	9.6	20	79	5	203	19	20	24	35	1.95
711859--712030	60	2.8	60	84	0	236	20	19	25	34	1.96
711856--712171	60	5.2	60	77	8	232	19	18	25	36	1.95
712017--712114	20	4.8	20	77	3	79	21	18	23	36	1.95
712017--712114	41	2.4	41	77	6	110	21	18	23	36	1.95
718928--718957	15	2.0	15	100	0	60	13	26	46	13	1.80
728043--728093	21	2.4	22	77	9	61	29	25	19	25	1.99
729877--729902	3	8.7	3	100	0	52	65	0	34	0	0.93
731427--731976	252	2.2	252	96	0	1012	29	16	17	36	1.92
734259--734303	22	2.0	22	83	8	56	42	17	22	17	1.89
740627--740687	23	2.9	19	81	11	59	21	36	24	18	1.95
744345--744407	3	21.0	3	100	0	126	66	0	0	33	0.92
746023--746055	13	2.6	13	95	4	59	39	0	39	21	1.53
753785--753838	25	2.2	25	87	9	76	29	7	11	51	1.64
755752--755827	32	2.4	29	79	12	80	43	5	2	48	1.39
756012--756045	17	2.1	15	89	10	50	50	5	0	44	1.26
756192--756255	16	4.0	16	89	0	83	18	25	14	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
756514--756562	23	2.1	24	92	7	84	48	0	4	46	1.20
756786--756823	18	2.1	18	90	0	58	47	10	0	42	1.38
757033--757071	19	2.0	20	90	9	64	28	33	0	38	1.57
757142--757188	2	23.5	2	87	8	69	51	2	2	44	1.25
761072--761132	23	2.8	21	80	5	68	21	24	26	27	1.99
761053--761132	21	3.8	21	76	11	74	21	23	25	30	1.99
765253--765297	23	2.0	23	81	0	54	26	24	26	22	2.00
776435--776463	2	14.5	2	100	0	58	48	0	0	51	1.00
776823--776936	14	8.2	14	72	9	74	48	25	0	25	1.57
776821--776932	21	5.4	21	67	20	65	48	25	0	25	1.57

Tables:   1   2   3   4   5   6   7