genome.fa.s5606.2.7.7.80.10.50.1000.10.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: VEPZ01005606.1 Hibiscus syriacus cultivar Beakdansim tig00013040_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3509357

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  10  of  11  ( 1295 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)
2828944--2828979	13	2.8	13	91	0	54	19	8	0	72	1.10
2828958--2828999	20	2.1	20	91	8	68	19	14	0	66	1.25
2832057--2832230	90	2.0	88	94	2	303	39	9	5	44	1.61
2832195--2832264	22	3.3	21	70	16	63	48	1	5	44	1.35
2837262--2837655	44	9.0	44	84	2	463	43	12	19	23	1.86
2837262--2837644	129	2.9	130	82	3	412	43	12	19	23	1.85
2837262--2837655	173	2.3	173	83	3	477	43	12	19	23	1.86
2839963--2840005	20	2.1	21	86	4	61	41	13	11	32	1.81
2842764--2842814	24	2.1	24	85	0	66	11	11	17	58	1.62
2849750--2849822	33	2.2	33	97	0	137	38	15	5	41	1.70
2858484--2858528	18	2.5	18	96	0	81	33	4	33	28	1.77
2865772--2865814	15	2.9	15	96	0	77	25	23	0	51	1.49
2870351--2870390	21	1.9	21	84	0	53	72	5	17	5	1.21
2870358--2870411	24	2.3	24	84	9	67	70	3	14	11	1.29
2875707--2875770	26	2.5	26	92	0	101	42	25	7	25	1.81
2876328--2876354	2	13.5	2	100	0	54	48	0	0	51	1.00
2892000--2892029	15	1.9	16	93	6	53	56	0	26	16	1.40
2892001--2892038	15	2.4	16	82	8	51	57	2	26	13	1.49
2900046--2900088	12	3.6	12	100	0	86	41	25	6	25	1.80
2900191--2900236	24	1.9	25	91	8	78	2	23	4	69	1.17
2900478--2900542	16	4.0	16	75	18	55	61	0	21	16	1.34
2900694--2900733	13	3.0	13	82	7	53	35	0	40	25	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2906291--2906396	50	2.3	46	84	14	130	33	1	11	53	1.47
2910170--2910203	16	2.1	16	88	0	50	29	17	38	14	1.90
2914318--2914372	24	2.3	25	81	6	60	32	16	21	29	1.95
2919365--2919394	15	2.0	15	100	0	60	26	6	46	20	1.75
2919549--2919599	24	2.1	24	85	0	66	13	11	17	56	1.66
2930568--2930674	50	2.3	46	81	13	123	33	1	12	52	1.49
2931070--2931112	22	2.0	22	81	9	52	13	13	2	69	1.28
2935990--2936020	12	2.6	12	100	0	62	77	16	6	0	0.97
2941254--2941289	2	18.0	2	100	0	72	50	0	0	50	1.00
2943369--2943411	16	2.7	16	92	0	68	46	13	30	9	1.75
2946901--2946944	16	2.8	16	89	0	70	45	15	29	9	1.77
2949819--2949861	16	2.7	16	92	0	68	48	13	30	6	1.69
2955009--2955048	9	4.3	9	82	17	55	15	20	0	65	1.28
2956691--2956732	21	2.0	21	100	0	84	19	33	19	28	1.96
2958609--2958645	2	19.5	2	89	10	60	48	0	0	51	1.00
2961567--2961633	27	2.4	28	87	7	93	2	16	2	77	1.01
2961604--2961635	17	1.9	17	93	6	57	0	15	6	78	0.95
2961567--2961633	28	2.4	29	82	9	86	2	16	2	77	1.01
2964734--2964775	2	21.0	2	100	0	84	50	0	0	50	1.00
2966058--2966090	17	1.9	17	88	11	50	42	6	9	42	1.61
2970711--2970736	7	3.7	7	100	0	52	88	0	0	11	0.52
2970704--2970742	14	2.8	14	85	14	62	87	0	5	7	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2970771--2970820	22	2.3	21	80	13	57	68	8	18	6	1.36
2980404--2980457	24	2.2	25	80	9	67	29	20	27	22	1.98
2986146--2986175	11	2.6	11	94	5	51	3	0	10	86	0.67
2987726--2987927	101	2.0	101	100	0	404	22	26	11	38	1.89
2991988--2992034	19	2.6	18	77	16	51	53	2	6	38	1.39
3002677--3002846	90	1.9	88	92	2	286	38	10	6	44	1.64
3002811--3002879	22	3.3	21	75	13	70	47	0	4	47	1.21
3019160--3019192	15	2.2	15	100	0	66	54	18	15	12	1.71
3026192--3026237	21	2.2	20	82	17	51	26	10	4	58	1.50
3027240--3027282	20	2.2	20	87	4	61	34	9	6	48	1.62
3031591--3031630	21	1.9	21	84	0	53	35	22	7	35	1.82
3043234--3043285	24	2.1	26	89	10	83	57	13	17	11	1.64
3049374--3049652	140	2.0	139	91	2	452	29	13	12	45	1.79
3051111--3051151	21	2.0	20	90	4	64	12	29	0	58	1.34
3051564--3051600	16	2.3	16	90	0	56	18	18	0	62	1.34
3059402--3059453	10	5.4	9	75	11	50	80	1	11	5	0.96
3059394--3059453	19	3.2	18	74	21	61	81	1	11	5	0.91
3065281--3065326	24	1.9	24	81	0	56	30	21	13	34	1.91
3071436--3071470	16	2.2	17	85	15	56	77	0	22	0	0.78
3071550--3071585	15	2.4	15	90	0	54	27	2	25	44	1.68
3080437--3080484	13	3.3	15	77	14	55	0	4	12	83	0.79
3080444--3080487	20	2.2	20	88	11	65	0	2	9	88	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3082974--3083006	12	2.6	13	85	9	50	21	15	0	63	1.30
3083258--3083317	13	4.7	12	84	10	66	83	1	15	0	0.73
3083258--3083317	16	3.9	15	78	22	63	83	1	15	0	0.73
3083258--3083317	26	2.3	26	85	2	77	83	1	15	0	0.73
3101932--3101990	23	2.5	23	80	2	73	3	18	0	77	0.90
3101937--3101990	15	3.6	14	85	12	63	1	18	0	79	0.82
3115245--3115297	24	2.3	24	83	6	65	7	16	15	60	1.57
3125648--3125686	15	2.5	15	83	4	51	0	28	0	71	0.86
3125677--3125725	24	2.0	25	92	4	82	12	16	14	57	1.66
3131986--3132023	19	2.0	20	89	5	60	36	5	2	55	1.37
3137004--3137036	17	1.9	17	93	0	57	45	6	12	36	1.66
3137458--3137502	23	2.0	23	86	8	65	37	2	20	40	1.65
3149559--3149601	20	2.2	20	87	8	61	65	0	20	13	1.27
3152802--3152854	24	2.2	24	93	0	88	58	16	15	9	1.62
3152971--3153046	34	2.2	34	88	4	118	14	28	5	51	1.64
3159078--3159115	19	2.0	19	90	10	60	78	0	13	7	0.94
3160048--3160559	258	2.0	254	96	3	940	34	13	17	34	1.89
3167200--3167247	24	2.0	23	88	4	69	62	12	16	8	1.53
3173564--3173615	22	2.2	24	90	6	81	13	17	9	59	1.60
3176062--3176103	22	2.0	21	90	4	66	38	35	2	23	1.68
3179031--3179081	19	2.6	20	87	3	68	45	5	13	35	1.68
3184068--3184123	29	1.9	29	100	0	112	25	17	14	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3184696--3185027	165	2.0	167	98	1	650	25	21	16	37	1.93
3185625--3185676	21	2.5	21	100	0	104	57	0	23	19	1.40
3185708--3185748	22	1.9	21	90	5	64	26	2	36	34	1.70
3194030--3194080	5	9.8	5	80	16	59	3	17	0	78	0.90
3194033--3194079	16	2.9	16	77	22	62	4	19	0	76	0.95
3194331--3194370	21	1.9	21	85	10	55	62	0	17	20	1.33
3194393--3194433	22	1.9	21	90	5	64	26	2	34	36	1.70
3210421--3210460	21	1.9	21	85	10	55	62	0	17	20	1.33
3212791--3212833	20	2.2	20	87	4	61	34	9	6	48	1.62
3214051--3214102	25	2.1	25	100	0	104	42	7	34	15	1.75
3214887--3214940	24	2.2	24	74	6	56	35	7	20	37	1.81
3218415--3218441	13	2.1	13	100	0	54	14	22	0	62	1.31
3218717--3218765	20	2.4	21	80	13	57	75	6	18	0	1.00
3222877--3222919	16	2.6	16	85	3	50	23	9	0	67	1.19
3224351--3224402	27	1.9	27	100	0	104	42	3	17	36	1.67
3230314--3230356	20	2.2	20	87	4	61	34	9	6	48	1.62
3233189--3233230	14	3.0	14	100	0	84	21	42	0	35	1.53
3233920--3234139	110	2.0	110	100	0	440	40	21	17	20	1.91
3235774--3235799	10	2.6	10	100	0	52	73	0	26	0	0.84
3235837--3235898	31	2.0	31	96	3	117	29	12	17	40	1.87
3238810--3239082	90	3.0	91	89	1	404	22	26	21	30	1.99
3242352--3242383	13	2.5	13	95	5	57	40	0	31	28	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3246363--3246406	23	2.0	23	86	4	63	61	18	9	11	1.55
3246373--3246421	24	2.1	23	84	3	62	65	12	12	10	1.48
3248064--3248104	22	1.9	21	90	5	64	24	2	36	36	1.69
3248786--3248831	23	2.0	23	83	8	58	36	6	8	47	1.60
3250455--3250505	18	2.8	18	83	13	61	74	5	15	3	1.16
3250455--3250502	20	2.6	17	84	15	53	72	6	16	4	1.20
3253409--3253454	23	2.0	23	83	8	58	36	6	8	47	1.60
3254768--3254826	24	2.5	24	97	2	111	20	11	0	67	1.21
3254768--3254840	24	3.0	24	90	4	94	23	10	0	65	1.24
3259505--3259547	17	2.5	17	84	0	50	4	11	2	81	0.93

Tables:   1   2   3   4   5   6   7   8   9   10   11