genome.fa.s8229.2.7.7.80.10.50.1000.14.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: VEPZ01008229.1 Hibiscus syriacus cultivar Beakdansim tig00110865_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3634043

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  14  of  17  ( 2034 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)
2670279--2670407	51	2.5	51	92	1	206	33	3	0	62	1.19
2679920--2679957	20	1.9	20	100	0	76	28	15	28	26	1.96
2680055--2680112	23	2.5	23	77	5	64	37	1	1	58	1.18
2682245--2682320	22	3.4	22	96	1	134	31	13	28	26	1.93
2683425--2683474	21	2.4	21	93	0	82	24	32	20	24	1.98
2683787--2683824	16	2.4	16	95	0	67	21	5	28	44	1.73
2691518--2691547	15	2.0	15	100	0	60	33	0	46	20	1.51
2697449--2697516	21	3.2	21	93	0	118	30	14	13	41	1.84
2701025--2701062	14	2.8	14	88	4	60	68	0	0	31	0.90
2701177--2701232	26	2.1	27	81	12	64	44	10	1	42	1.49
2710911--2710950	21	2.0	21	85	5	55	15	25	2	57	1.50
2714628--2714658	16	1.9	16	93	0	53	48	0	3	48	1.17
2714618--2714722	40	2.6	40	80	10	115	44	4	2	47	1.38
2714699--2714756	21	3.0	21	85	9	70	44	6	1	46	1.40
2714702--2714757	17	3.1	17	82	14	67	46	7	1	44	1.41
2714726--2714766	17	2.4	17	87	0	55	43	9	0	46	1.36
2720001--2720120	35	3.4	35	77	10	100	26	13	17	42	1.86
2724358--2724437	36	2.2	36	82	4	99	27	20	17	35	1.95
2724380--2724497	35	3.3	35	77	8	114	27	20	16	35	1.94
2739639--2739747	44	2.5	44	84	3	148	32	20	17	30	1.95
2753577--2753616	18	2.2	18	100	0	80	27	10	12	50	1.72
2754343--2754454	44	2.5	44	85	0	143	30	15	18	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2761091--2761130	15	2.6	15	92	4	62	22	20	20	37	1.94
2765548--2766339	397	2.0	397	98	0	1521	26	18	20	33	1.96
2767859--2767977	42	2.9	43	78	8	124	24	36	0	39	1.56
2776713--2776801	36	2.4	36	77	7	90	48	5	19	26	1.71
2788849--2788873	6	4.2	6	100	0	50	48	0	20	32	1.50
2802843--2803016	73	2.4	74	83	1	217	37	16	4	41	1.69
2803065--2803296	77	3.0	77	72	12	220	38	17	8	35	1.80
2803404--2803563	77	2.1	77	86	6	218	33	17	11	36	1.86
2806627--2806707	29	2.8	28	83	3	90	59	2	2	35	1.24
2809319--2809378	32	2.0	29	83	9	75	58	3	3	35	1.31
2810925--2810958	15	2.3	15	90	5	52	70	0	0	29	0.87
2817282--2817418	33	4.1	33	85	8	145	56	10	24	8	1.59
2820294--2820358	22	2.9	22	78	15	62	29	7	10	52	1.64
2820387--2820430	18	2.4	18	96	0	79	13	11	15	59	1.62
2829606--2829632	2	13.5	2	100	0	54	51	48	0	0	1.00
2829636--2829667	2	16.0	2	100	0	64	50	0	0	50	1.00
2831956--2831996	21	2.0	21	85	9	57	78	0	2	19	0.87
2850315--2850420	52	2.0	52	96	0	194	35	0	30	33	1.58
2850805--2850892	45	1.9	46	95	2	160	27	25	20	27	1.99
2851812--2851929	61	1.9	61	89	0	182	27	31	16	25	1.96
2868812--2868854	2	21.5	2	100	0	86	0	0	48	51	1.00
2869215--2869301	42	2.0	43	95	2	158	56	18	3	21	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2876098--2876154	8	7.5	8	76	11	66	71	0	1	26	0.95
2876098--2876154	15	3.8	16	79	11	66	71	0	1	26	0.95
2876195--2876237	18	2.4	18	88	0	59	69	0	6	23	1.12
2880881--2880977	5	18.8	5	73	10	70	72	1	7	19	1.14
2880881--2880977	11	9.4	10	74	7	70	72	1	7	19	1.14
2880881--2880977	16	6.3	15	71	8	70	72	1	7	19	1.14
2880933--2880971	21	1.9	21	89	5	62	76	2	5	15	1.06
2888063--2888115	20	2.7	20	82	2	63	35	5	13	45	1.67
2889168--2889230	33	1.9	33	83	6	83	57	12	20	9	1.63
2891173--2891635	47	9.7	47	86	4	586	44	11	20	22	1.83
2891544--2891624	27	3.3	24	77	22	80	43	12	22	22	1.86
2898435--2898781	47	7.4	47	93	0	577	44	12	22	21	1.85
2900814--2900875	29	2.1	29	100	0	124	58	9	11	20	1.61
2901271--2901305	2	18.0	2	94	5	63	48	0	0	51	1.00
2912938--2913452	139	3.8	139	81	7	571	26	20	17	35	1.94
2912930--2913452	274	1.9	265	80	9	601	26	19	17	36	1.94
2914031--2914144	42	2.8	40	78	7	113	30	18	23	27	1.98
2914565--2914902	55	6.2	55	81	9	397	41	13	10	34	1.80
2914563--2914902	110	3.1	110	86	4	447	41	13	10	34	1.80
2914564--2914902	166	2.1	163	88	3	511	41	13	10	34	1.80
2916761--2916854	9	10.4	9	71	8	75	1	18	1	79	0.85
2916762--2916865	18	5.2	19	73	19	68	2	18	0	77	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2916763--2916853	24	3.9	23	76	15	89	1	18	1	79	0.86
2916763--2916852	22	4.0	22	84	5	108	1	18	1	78	0.87
2916780--2916852	28	2.6	28	74	18	55	0	20	1	78	0.83
2916763--2916852	45	2.0	46	86	6	130	1	18	1	78	0.87
2917125--2917160	2	18.0	2	94	0	63	50	2	0	47	1.15
2922536--2922659	42	3.0	41	83	4	142	24	8	19	47	1.77
2924454--2924514	22	2.8	22	95	2	106	19	34	26	19	1.96
2931812--2931850	18	2.2	18	85	0	51	35	30	25	7	1.84
2934037--2934255	105	2.1	104	82	2	260	40	11	11	36	1.78
2934610--2934666	19	3.0	19	100	0	114	31	10	21	36	1.87
2939105--2939151	12	3.6	13	80	11	51	57	0	0	42	0.98
2939128--2939154	14	1.9	14	100	0	54	51	0	0	48	1.00
2946341--2946404	3	21.7	3	84	15	89	65	0	0	34	0.93
2946703--2946780	40	2.0	39	82	7	95	23	20	35	20	1.96
2946613--2946886	133	2.1	134	90	2	435	24	19	32	24	1.98
2946613--2946921	133	2.3	134	87	2	381	23	19	31	25	1.98
2946930--2947039	28	3.8	28	79	8	105	43	15	16	24	1.86
2947017--2947210	66	3.0	64	78	7	176	39	13	20	26	1.90
2947248--2947384	64	2.2	62	81	7	152	41	15	10	32	1.82
2947564--2947624	31	1.9	31	87	9	88	40	13	14	31	1.84
2948258--2948321	3	21.7	3	81	15	80	64	0	1	34	1.03
2949178--2949219	21	2.0	22	85	4	59	30	23	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2953121--2953183	31	2.1	29	88	11	92	57	7	12	22	1.61
2953587--2953689	52	2.0	51	92	3	172	35	9	14	39	1.79
2957839--2957864	10	2.6	10	100	0	52	34	0	15	50	1.45
2958606--2958658	27	2.0	27	84	0	70	22	18	45	13	1.84
2959290--2959327	19	2.0	19	100	0	76	52	5	0	42	1.24
2960377--2960433	9	6.7	9	74	11	57	64	1	1	31	1.13
2960379--2960431	16	3.2	17	84	10	65	66	1	1	30	1.13
2960377--2960433	25	2.2	26	84	3	71	64	1	1	31	1.13
2960385--2960434	17	3.0	17	91	2	75	60	4	2	34	1.27
2964763--2964817	23	2.4	23	93	0	101	40	7	18	34	1.78
2971203--2971235	12	2.8	12	90	0	57	60	0	15	24	1.35
2974596--2974750	81	1.9	81	86	2	222	35	22	11	30	1.90
2976172--2976234	23	3.0	20	71	15	63	52	15	4	26	1.63
2976329--2976382	29	1.9	27	92	3	81	53	11	12	22	1.70
2982574--2982901	35	9.0	35	80	9	345	44	3	9	41	1.56
2982574--2982901	72	4.5	71	81	6	363	44	3	9	41	1.56
2982790--2982926	35	3.7	38	78	7	97	48	3	8	39	1.50
2982944--2982991	13	3.5	13	85	5	60	25	2	0	72	0.95
2982963--2982999	17	2.2	17	95	0	65	18	5	0	75	0.99
2990853--2990904	17	3.1	17	75	10	61	15	17	1	65	1.36
2993641--2993679	20	2.0	20	84	0	51	56	10	0	33	1.33
2996527--2996614	23	3.9	23	78	14	103	28	25	22	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3003929--3004025	51	1.9	51	91	0	158	37	18	25	18	1.94
3007313--3007338	2	13.0	2	100	0	52	50	0	0	50	1.00
3007518--3007570	26	2.0	26	96	0	97	54	5	16	22	1.63
3011134--3011208	21	3.7	20	85	5	96	32	21	21	25	1.98
3013246--3013275	3	9.7	3	92	7	51	70	0	0	30	0.88
3013304--3013339	2	18.5	2	94	5	65	47	0	0	52	1.00
3013356--3013574	27	9.2	25	66	21	80	40	9	3	47	1.51
3013320--3013439	48	2.5	48	81	10	138	43	10	3	43	1.54
3013334--3013421	21	3.9	21	71	17	68	43	12	2	42	1.55
3013418--3013498	41	2.0	40	90	2	126	39	6	4	49	1.49

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17