genome.fa.s8209.2.7.7.80.10.50.1000.12.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  12  of  30  ( 3569 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)
2811214--2811253	3	13.7	3	85	15	57	70	0	2	27	1.01
2811310--2811395	30	2.9	29	84	6	111	48	9	2	39	1.48
2811375--2811560	38	4.9	36	78	11	162	43	7	3	45	1.48
2811375--2811576	77	2.7	74	80	12	216	43	7	3	45	1.50
2811398--2811576	38	4.6	39	79	7	168	43	7	4	45	1.52
2812133--2813143	165	6.1	165	96	1	1771	22	21	25	29	1.99
2812133--2813143	328	3.1	328	96	0	1790	22	21	25	29	1.99
2816500--2816544	19	2.4	19	92	3	74	66	8	13	11	1.44
2817902--2818049	69	2.1	69	94	0	278	19	23	31	25	1.98
2819666--2819731	6	11.8	5	80	15	51	75	0	3	21	0.93
2819679--2819723	3	15.7	3	84	13	51	73	0	2	24	0.95
2819783--2819871	30	3.0	30	83	3	117	49	8	2	39	1.47
2819845--2820040	38	5.1	37	78	11	184	44	7	3	44	1.48
2819908--2820053	77	1.9	77	87	5	215	45	8	3	43	1.50
2820760--2820935	29	6.0	28	78	7	163	36	5	0	57	1.27
2820754--2820915	57	2.8	58	81	7	175	38	5	0	55	1.28
2821001--2821073	31	2.4	31	81	9	78	34	8	2	54	1.44
2820753--2821084	29	11.1	30	75	10	103	36	7	1	54	1.38
2821032--2821155	31	4.1	29	74	10	97	33	4	4	58	1.36
2821172--2821303	59	2.2	59	81	9	153	50	1	9	39	1.44
2821157--2821300	29	5.0	29	78	14	138	52	1	8	38	1.40
2821888--2821917	15	2.1	15	93	6	53	20	3	0	76	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2822050--2822201	70	2.2	71	78	3	164	29	9	7	53	1.61
2824428--2824497	31	2.3	31	82	7	81	25	15	11	47	1.79
2824575--2824656	31	2.6	31	81	9	96	51	9	3	35	1.53
2826517--2826675	41	3.8	41	76	9	142	32	20	17	29	1.95
2827409--2827452	17	2.6	17	85	0	61	45	2	2	50	1.27
2830003--2830051	21	2.2	22	79	20	57	32	26	4	36	1.75
2833542--2833583	21	2.0	21	100	0	84	47	14	23	14	1.80
2834252--2834369	54	2.2	54	87	3	166	32	16	22	29	1.95
2834439--2834545	54	2.0	54	83	3	135	25	16	20	37	1.93
2834306--2834794	135	3.6	134	84	4	610	28	20	19	32	1.97
2834306--2834794	270	1.8	268	85	2	685	28	20	19	32	1.97
2840711--2840770	14	4.2	14	75	12	59	71	1	3	23	1.10
2841526--2841574	10	4.9	10	85	9	64	79	2	0	18	0.83
2841536--2841574	15	2.6	15	84	12	53	82	0	0	17	0.68
2841525--2841571	14	3.1	14	82	14	51	78	2	0	19	0.85
2841536--2841586	20	2.5	20	87	3	66	78	0	0	21	0.75
2841526--2841591	20	3.4	19	79	10	62	74	3	0	22	0.96
2842412--2842459	23	2.1	22	85	11	62	43	0	6	50	1.27
2850054--2850087	17	2.0	17	88	11	52	35	0	20	44	1.52
2850494--2850546	23	2.3	24	90	6	83	20	20	26	32	1.98
2856844--2856874	16	1.9	16	93	0	53	54	0	0	45	0.99
2857274--2857493	81	2.7	81	77	5	203	23	24	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2858121--2858187	31	2.2	31	86	10	93	28	13	8	49	1.72
2861014--2861175	78	2.1	76	79	10	177	59	12	1	25	1.44
2861139--2861174	13	2.8	13	95	0	63	69	2	5	22	1.22
2862800--2862829	15	2.1	15	93	6	53	76	0	3	20	0.92
2864712--2864835	62	2.0	63	83	10	157	32	16	18	32	1.94
2865604--2865646	21	2.0	22	90	4	70	27	18	30	23	1.98
2865719--2865762	19	2.3	19	88	7	63	36	18	4	40	1.71
2871495--2871525	16	1.9	16	100	0	62	41	0	0	58	0.98
2873989--2874017	2	14.5	2	100	0	58	51	0	0	48	1.00
2874152--2874195	22	2.0	22	100	0	88	36	0	13	50	1.42
2874220--2874278	31	1.9	31	96	0	109	42	8	6	42	1.61
2877466--2877563	15	6.5	15	79	0	97	38	6	18	36	1.76
2877509--2877576	30	2.3	30	84	0	82	35	13	17	33	1.89
2884341--2884408	15	4.5	15	76	7	57	38	4	19	38	1.72
2884539--2884611	24	3.0	24	81	0	92	21	21	23	32	1.98
2885200--2885233	17	2.1	17	88	5	52	44	5	17	32	1.73
2888523--2888740	21	10.1	22	79	9	177	19	19	23	36	1.95
2888528--2888755	42	5.3	42	77	10	239	20	19	23	36	1.95
2888537--2888748	63	3.3	63	80	10	241	19	19	23	37	1.94
2889348--2889426	5	15.6	5	94	2	122	0	20	54	25	1.45
2896401--2896446	22	2.1	22	100	0	92	28	26	21	23	1.99
2898020--2898063	14	3.3	14	87	12	74	50	36	0	13	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2899347--2899395	19	2.6	19	96	0	89	26	14	8	51	1.70
2900822--2900970	74	2.0	74	92	2	246	21	14	16	47	1.82
2901645--2901685	21	2.0	21	90	0	64	46	17	9	26	1.79
2904379--2904817	129	3.5	120	81	12	528	39	4	7	48	1.51
2904482--2904817	132	2.6	130	86	8	445	41	4	5	48	1.47
2907658--2907714	20	2.8	20	74	10	62	24	26	17	31	1.97
2910846--2910883	19	2.0	19	94	0	67	28	10	7	52	1.64
2911114--2911171	20	3.2	19	72	23	61	22	31	18	27	1.97
2911332--2911371	20	1.9	22	90	10	66	40	40	10	10	1.72
2911831--2911892	21	3.0	21	80	4	81	19	33	29	17	1.95
2911833--2911893	20	3.0	20	82	2	77	19	31	29	19	1.97
2920590--2920795	75	2.7	76	84	3	256	24	31	23	20	1.98
2929228--2929433	74	2.8	74	84	3	243	24	30	23	21	1.99
2930894--2930998	23	4.7	22	85	5	131	25	25	20	28	1.99
2930894--2930998	44	2.3	46	85	7	144	25	25	20	28	1.99
2933277--2933302	13	2.0	13	100	0	52	23	7	23	46	1.78
2933705--2933748	22	2.2	20	84	15	56	25	38	15	20	1.92
2934463--2934508	21	2.2	21	88	0	65	17	47	23	10	1.79
2934857--2934926	34	2.1	32	84	5	86	31	15	28	24	1.96
2934836--2935496	329	2.0	328	91	2	1067	29	19	19	31	1.96
2937994--2938067	32	2.3	32	92	0	121	39	12	12	36	1.80
2938414--2938439	3	8.7	3	100	0	52	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2942191--2942266	15	5.3	15	71	15	61	53	2	2	40	1.28
2942190--2942281	42	2.2	42	92	1	150	51	4	3	41	1.38
2947876--2947920	8	5.6	8	87	10	65	77	0	22	0	0.76
2949125--2949179	23	2.4	23	76	11	60	21	21	18	38	1.94
2949181--2949226	24	1.9	24	86	8	67	19	21	21	36	1.95
2955417--2955495	23	3.4	23	87	0	104	27	16	17	37	1.91
2957671--2957728	25	2.3	25	82	8	64	51	5	3	39	1.41
2957884--2957966	3	27.7	3	100	0	166	66	0	0	33	0.92
2960269--2960325	2	28.5	2	100	0	114	50	0	0	49	1.00
2960611--2960713	9	11.9	8	76	16	57	58	0	0	41	0.98
2960621--2960715	26	3.7	26	73	10	70	60	0	0	40	0.97
2960609--2960716	34	3.2	33	92	5	162	59	0	0	40	0.98
2960646--2960712	2	36.5	2	78	16	65	55	0	0	44	0.99
2973331--2973378	23	2.0	26	84	12	66	35	0	18	45	1.50
2975943--2975989	24	2.0	24	91	0	76	38	0	0	61	0.96
2976396--2976511	42	2.8	42	94	0	196	18	17	18	46	1.84
2976682--2976744	23	2.6	24	78	19	60	52	0	0	47	1.00
2976785--2976877	28	3.4	28	79	15	95	45	1	2	51	1.20
2976862--2976923	23	2.6	23	84	5	70	51	4	3	40	1.39
2977018--2977055	18	2.0	20	85	10	53	60	0	0	39	0.97
2977204--2977253	20	2.5	20	100	0	100	34	16	10	40	1.81
2977236--2977291	15	3.8	15	85	4	87	30	17	7	44	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2978908--2978964	23	2.5	22	75	11	60	61	7	3	28	1.39
2979012--2979056	23	2.0	23	86	0	63	22	22	26	28	1.99
2985184--2985274	40	2.3	39	80	10	96	5	17	4	72	1.21
2991021--2991402	54	7.1	54	84	1	487	32	18	19	28	1.96
2992494--2992518	2	12.5	2	100	0	50	48	0	0	52	1.00
2992681--2992739	4	14.0	4	75	21	50	22	3	0	74	0.96
2992671--2992733	14	4.6	13	75	16	56	17	4	1	76	1.04
2992681--2992733	20	2.6	19	82	11	61	18	3	0	77	0.92
2992803--2992842	16	2.6	16	88	4	55	15	7	7	70	1.33
2996680--2996749	31	2.2	31	82	2	77	28	12	22	35	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30