genome.fa.s7957.2.7.7.80.10.50.1000.15.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  15  of  43  ( 5063 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)
2845414--2845448	18	1.9	18	100	0	70	48	11	0	40	1.39
2845865--2845902	18	2.2	18	90	4	60	21	10	5	63	1.46
2848837--2848862	11	2.4	11	100	0	52	15	0	0	84	0.62
2851469--2851506	18	2.2	18	90	4	60	21	10	5	63	1.46
2856218--2856271	23	2.3	23	80	0	63	55	11	16	16	1.68
2856436--2856534	3	31.3	3	77	11	74	35	3	4	57	1.33
2857040--2857084	16	2.6	18	79	13	58	40	0	13	46	1.43
2857148--2857190	14	3.1	14	90	6	61	62	9	9	18	1.51
2857143--2857195	24	2.2	24	86	0	70	58	11	11	18	1.62
2857238--2857316	40	1.9	41	82	7	97	35	12	12	39	1.81
2858271--2858311	21	2.1	19	86	9	55	26	19	17	36	1.94
2858463--2858502	17	2.4	17	95	0	71	30	20	27	22	1.98
2860231--2860266	18	2.1	16	90	10	54	63	5	25	5	1.38
2862068--2862134	20	3.3	20	89	2	98	37	16	13	32	1.88
2862141--2862192	20	2.7	19	85	5	68	34	17	11	36	1.86
2863103--2863177	39	1.9	38	94	2	132	38	0	26	34	1.57
2865058--2865115	27	2.1	27	80	0	62	37	10	15	36	1.82
2866222--2866307	43	2.0	43	100	0	172	51	4	9	34	1.55
2866547--2866575	15	2.0	15	93	6	51	62	13	0	24	1.32
2869221--2869307	34	2.5	35	86	3	122	19	35	25	19	1.95
2869488--2869527	21	1.9	21	85	10	55	35	37	12	15	1.85
2872133--2872173	20	2.0	21	85	4	57	26	19	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2872203--2872242	21	1.9	21	85	10	55	35	37	12	15	1.85
2874948--2875074	23	5.6	23	83	2	168	17	27	25	29	1.97
2874940--2875077	46	3.0	46	95	2	244	17	27	23	31	1.97
2888671--2888758	30	2.9	30	81	5	97	40	11	9	38	1.73
2889858--2889904	2	23.5	2	100	0	94	51	0	0	48	1.00
2889972--2890018	21	2.2	21	85	7	60	42	0	0	57	0.98
2901042--2901070	15	1.9	15	100	0	58	20	13	27	37	1.91
2914354--2914378	4	6.2	4	100	0	50	28	0	24	48	1.52
2914621--2914683	30	2.1	30	96	0	117	25	19	23	31	1.98
2918064--2918182	64	1.9	63	81	8	143	37	20	19	22	1.94
2919278--2919353	31	2.5	30	80	4	80	30	15	21	32	1.94
2919339--2919410	30	2.4	30	93	2	119	25	18	23	33	1.97
2923944--2923970	13	2.1	13	100	0	54	40	37	14	7	1.74
2924309--2924360	6	8.7	6	100	0	104	48	0	34	17	1.48
2930430--2930807	186	2.0	185	91	1	605	45	8	3	41	1.53
2930754--2930812	19	3.1	19	80	2	64	44	1	1	52	1.21
2932441--2932494	20	2.8	19	86	5	81	20	16	31	31	1.95
2933039--2933079	20	2.0	20	86	9	57	60	17	2	19	1.46
2933110--2933152	18	2.4	18	92	0	68	55	13	9	20	1.66
2936869--2936966	29	3.4	28	80	6	106	44	6	8	40	1.59
2942317--2942389	35	2.1	35	97	0	137	57	8	6	27	1.53
2944944--2945000	26	2.2	27	84	6	73	54	0	1	43	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2947331--2947374	21	2.2	20	84	15	56	22	6	6	63	1.43
2948855--2949088	29	8.1	29	74	0	182	37	16	24	21	1.94
2948865--2949065	58	3.5	58	80	4	203	36	15	24	22	1.94
2957039--2957090	17	3.1	17	78	13	54	57	3	3	34	1.35
2957070--2957141	23	3.0	22	75	15	63	58	4	4	33	1.36
2957076--2957142	26	2.6	24	76	9	62	61	4	2	31	1.31
2957075--2957211	3	43.7	3	68	18	50	58	3	3	34	1.33
2962662--2962725	31	2.1	31	100	0	128	29	12	18	39	1.88
2965035--2965087	17	2.9	18	76	15	56	9	11	5	73	1.24
2965649--2965746	3	32.7	3	100	0	196	67	0	0	32	0.91
2965974--2966355	131	2.9	130	81	2	440	28	15	22	33	1.94
2966125--2966541	230	1.8	231	81	2	525	29	15	21	32	1.95
2978449--2978487	20	2.0	20	89	0	60	30	23	10	35	1.88
2979984--2980129	72	2.0	72	91	0	238	20	7	27	44	1.78
2980313--2980340	2	14.0	2	100	0	56	50	0	0	50	1.00
2981383--2981426	14	3.2	14	80	3	54	20	2	31	45	1.64
2982834--2982865	7	4.6	7	100	0	64	0	28	0	71	0.86
2984661--2984730	36	2.1	33	89	10	106	30	17	8	44	1.78
2987473--2987538	29	2.2	30	78	10	73	48	3	3	45	1.33
2989508--2989957	113	4.0	112	92	2	674	28	18	15	37	1.92
2990308--2990364	22	2.6	22	91	5	89	45	8	14	31	1.75
2990730--2990863	54	2.5	54	80	7	164	26	20	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2990730--2990885	54	2.9	54	81	3	163	23	19	16	39	1.92
2994880--2994915	16	2.2	16	95	0	63	0	13	0	86	0.58
2995084--2995253	82	2.0	86	95	4	312	25	21	15	37	1.93
2995403--2995767	173	2.2	166	84	9	488	44	8	3	43	1.51
2995826--2995885	30	2.0	30	83	6	77	38	8	21	31	1.83
2995891--2995919	15	1.9	15	100	0	58	17	6	27	48	1.72
2998977--2999015	12	2.9	14	85	14	55	56	7	20	15	1.63
2999070--2999110	6	6.0	7	81	16	50	58	12	14	14	1.63
3009481--3009534	2	27.0	2	100	0	108	50	0	0	50	1.00
3017140--3017211	29	2.5	29	93	0	117	26	26	22	25	2.00
3017244--3017292	19	2.7	17	84	9	53	26	20	28	24	1.99
3017264--3017388	64	1.9	65	87	4	182	27	20	22	29	1.99
3018127--3018155	14	2.0	15	93	6	51	62	27	3	6	1.37
3025898--3026107	65	3.3	63	77	15	207	26	16	23	33	1.96
3026443--3026491	19	2.6	18	81	9	62	22	4	0	73	1.00
3028972--3029020	11	4.5	11	89	5	64	14	4	4	77	1.06
3028972--3029020	5	9.2	5	78	12	53	14	4	4	77	1.06
3028980--3029020	21	2.0	21	90	0	64	12	2	4	80	0.97
3030837--3030885	19	2.6	18	78	9	53	22	4	2	71	1.13
3035631--3035758	30	4.3	30	89	0	193	31	14	17	36	1.90
3037249--3037335	28	3.1	28	73	15	81	50	12	13	22	1.76
3043327--3043371	22	2.0	22	83	8	56	53	2	11	33	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3045800--3045870	30	2.5	27	84	6	79	53	36	2	7	1.43
3047340--3047396	5	11.4	5	78	14	64	15	1	3	78	0.96
3047340--3047396	14	3.8	15	80	17	57	15	1	3	78	0.96
3047340--3047378	11	3.6	11	89	3	62	17	0	5	76	0.96
3047340--3047382	22	2.0	22	91	8	72	16	0	4	79	0.90
3047340--3047398	22	3.0	19	85	14	68	15	1	3	79	0.94
3051604--3051642	20	1.9	21	84	5	53	48	2	28	20	1.62
3052110--3052294	39	4.8	39	84	4	250	31	15	16	36	1.91
3052166--3052223	19	3.0	19	72	20	57	29	15	18	36	1.92
3052309--3052777	59	7.9	59	83	1	584	29	27	14	28	1.96
3059781--3060194	2	200.0	2	62	19	57	46	7	4	41	1.50
3059781--3059820	9	4.6	9	82	17	57	57	0	2	40	1.12
3059832--3060312	11	44.6	11	63	22	84	46	8	4	41	1.54
3059876--3060066	15	12.4	15	67	24	51	45	7	4	42	1.52
3059832--3059980	64	2.3	64	81	9	158	46	8	4	40	1.54
3059806--3059966	86	1.9	86	84	5	218	45	7	4	42	1.52
3059812--3059987	86	2.0	86	80	6	196	45	8	4	41	1.55
3059955--3060252	13	21.2	13	68	19	113	46	8	4	40	1.53
3059832--3060302	13	36.3	13	65	20	66	46	8	4	41	1.54
3060280--3060312	9	3.8	9	88	4	50	48	6	0	45	1.27
3060275--3060395	31	4.3	29	75	18	105	47	5	3	43	1.43
3060422--3060466	22	2.0	23	82	4	56	42	2	13	42	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3060797--3060986	100	1.9	99	80	8	224	31	32	4	31	1.78
3061186--3061335	53	2.8	52	81	8	160	25	28	3	43	1.70
3063926--3063983	30	1.9	31	89	3	91	31	0	1	67	1.01
3063924--3063997	30	2.3	32	79	15	89	29	1	5	63	1.25
3064835--3064874	14	2.9	14	84	0	53	55	5	7	32	1.50
3065017--3065059	16	2.7	16	89	7	61	44	6	18	30	1.76
3074752--3075349	215	2.8	215	89	2	936	33	17	15	34	1.91
3075128--3075229	42	2.5	40	81	10	107	30	19	23	26	1.98
3075352--3075470	37	3.2	37	83	7	152	20	19	21	38	1.93
3076865--3076890	6	4.3	6	100	0	52	53	15	15	15	1.73

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   31   32   
          33   34   35   36   37   38   39   40   41   42   43