genome.fa.s8955.2.7.7.80.10.50.1000.13.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  13  of  23  ( 2731 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)
2584025--2584070	19	2.6	18	83	10	60	32	6	8	52	1.58
2584747--2585292	83	6.5	83	91	3	862	28	13	21	35	1.92
2586024--2586791	113	6.8	112	92	3	1238	37	11	19	31	1.88
2586016--2586791	339	2.3	339	95	2	1396	37	11	19	31	1.88
2587042--2587097	3	18.7	3	96	0	103	33	1	0	64	1.04
2587096--2587130	14	2.4	15	95	4	63	62	0	0	37	0.95
2596070--2596098	11	2.6	11	100	0	58	10	41	17	31	1.83
2598079--2598208	21	6.1	22	63	18	53	73	0	6	18	1.09
2598123--2598198	17	4.5	16	77	11	80	76	0	5	18	0.97
2598124--2598171	25	1.9	25	87	8	71	77	0	2	20	0.88
2598156--2598211	26	2.1	28	83	6	71	76	0	10	12	1.01
2598303--2598341	18	2.2	18	86	9	53	76	0	5	17	0.96
2598971--2599005	5	7.0	5	87	12	54	57	0	0	42	0.99
2599169--2599949	200	3.9	199	84	2	933	26	19	19	33	1.96
2600012--2600223	86	2.5	86	91	1	345	21	22	24	32	1.98
2607381--2607488	40	3.0	33	70	23	92	69	0	7	22	1.19
2607475--2607504	15	1.9	16	93	6	53	83	3	0	13	0.77
2607448--2607555	44	2.5	43	82	5	121	70	1	9	18	1.23
2607639--2607681	18	2.4	18	92	0	68	72	0	6	20	1.08
2608262--2608290	12	2.3	13	94	5	51	58	3	0	37	1.15
2609044--2609084	17	2.4	17	88	8	57	41	0	12	46	1.41
2610770--2610932	58	2.8	57	78	3	175	41	25	6	26	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2610770--2610932	29	5.7	28	76	3	146	41	25	6	26	1.78
2610933--2610983	17	2.9	17	94	2	84	13	23	45	17	1.84
2615419--2615465	23	2.0	23	88	8	69	38	8	31	21	1.83
2618673--2618786	50	2.3	50	96	0	210	32	14	11	42	1.81
2619025--2619080	19	2.8	20	81	5	69	25	16	14	44	1.84
2621604--2621851	136	1.8	137	90	2	401	38	20	8	32	1.82
2623191--2623234	21	2.0	23	86	8	65	34	2	11	52	1.50
2623562--2623593	11	2.9	11	95	0	55	56	12	0	31	1.37
2626815--2626865	22	2.3	22	100	0	102	21	15	15	47	1.83
2631617--2631666	18	2.8	18	96	0	91	28	0	46	26	1.53
2633483--2633561	16	5.5	13	73	20	54	75	3	3	16	1.09
2633496--2633574	16	4.6	17	76	17	74	73	7	3	15	1.20
2633723--2633757	14	2.6	13	86	8	52	74	0	11	14	1.08
2633724--2633754	14	2.2	14	94	0	53	77	0	9	12	0.99
2635543--2635751	86	2.5	86	83	4	262	25	17	20	36	1.94
2635826--2636345	121	4.3	121	88	2	695	22	14	26	36	1.93
2637719--2638144	212	2.0	215	98	1	831	22	22	17	37	1.94
2642086--2642219	51	2.6	51	87	7	189	73	6	4	15	1.21
2642096--2642224	17	7.6	16	71	21	77	74	6	4	14	1.18
2642255--2642284	15	1.9	16	93	6	53	86	0	6	6	0.70
2642342--2642404	2	31.5	2	100	0	126	50	0	0	49	1.00
2643844--2643902	31	1.9	31	92	0	100	40	6	10	42	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2643927--2643969	22	2.0	22	95	0	77	53	9	0	37	1.33
2643929--2643977	22	2.2	22	85	3	62	57	10	0	32	1.32
2643917--2644488	54	10.6	54	71	19	392	52	12	0	34	1.42
2643986--2644107	26	4.6	26	68	22	92	52	17	0	29	1.50
2643932--2644568	80	7.9	80	87	9	852	52	13	0	33	1.43
2644109--2644192	31	2.7	32	94	3	152	53	9	0	36	1.34
2644172--2644236	22	3.0	22	91	8	114	50	9	0	40	1.34
2644216--2644667	32	15.4	32	68	26	204	52	12	0	34	1.41
2644248--2644290	22	2.0	22	100	0	86	51	13	0	34	1.42
2644250--2644298	22	2.2	22	88	3	71	55	14	0	30	1.40
2644304--2644379	22	3.2	22	68	17	55	53	17	1	27	1.51
2644216--2644568	166	2.1	166	97	0	670	52	13	0	33	1.44
2644414--2644456	22	2.0	22	95	0	77	51	11	0	37	1.39
2644416--2644464	22	2.2	22	85	3	62	55	12	0	32	1.37
2644470--2644544	22	3.2	23	75	17	82	54	17	0	28	1.43
2644012--2644667	54	12.1	54	70	19	388	52	12	0	34	1.42
2644548--2644590	22	2.0	22	95	0	77	51	11	0	37	1.39
2644550--2644598	22	2.2	22	85	3	62	55	12	0	32	1.37
2644216--2644622	166	2.4	164	91	4	595	52	13	0	33	1.43
2644602--2644702	22	4.5	22	70	7	85	50	7	0	41	1.31
2644575--2644653	22	4.4	18	68	23	58	53	10	0	36	1.35
2644647--2644764	15	7.5	14	76	20	101	49	2	0	47	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2644593--2644749	69	2.3	66	83	7	190	49	5	0	44	1.29
2644690--2644764	30	2.5	30	91	4	116	46	0	1	52	1.09
2644513--2644734	54	4.3	47	87	9	176	50	8	0	41	1.32
2651836--2652185	37	9.6	34	73	18	121	45	3	7	43	1.49
2651835--2652185	109	3.2	106	77	14	335	45	3	7	43	1.50
2657915--2658102	94	2.0	94	98	0	367	37	15	18	27	1.92
2659106--2660206	84	13.3	83	78	7	1064	30	24	20	24	1.98
2659106--2660206	165	6.7	164	85	4	599	30	24	20	24	1.98
2659106--2660215	330	3.4	328	84	4	1297	30	24	20	25	1.98
2659106--2660083	411	2.4	411	84	4	1251	30	24	20	24	1.99
2660681--2661032	37	9.6	36	74	16	194	44	3	7	44	1.49
2661001--2661060	29	1.9	29	83	12	75	36	1	5	56	1.31
2662371--2662406	2	18.0	2	100	0	72	50	0	0	50	1.00
2665040--2665069	2	15.0	2	100	0	60	50	0	0	50	1.00
2665081--2665153	24	3.0	25	77	20	84	64	0	2	32	1.08
2665044--2665142	34	2.8	35	80	9	94	61	0	3	35	1.11
2665081--2665152	17	4.2	16	69	27	51	63	0	2	33	1.08
2665101--2665163	32	2.1	29	82	14	74	63	0	4	31	1.15
2665459--2665489	15	2.1	15	93	0	53	6	35	0	58	1.24
2665482--2665524	14	3.0	15	76	13	54	13	25	9	51	1.71
2665479--2665541	28	2.3	26	82	15	81	14	26	6	52	1.65
2667456--2667494	17	2.3	17	86	8	53	56	2	0	41	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2669745--2669770	13	2.0	13	100	0	52	15	30	23	30	1.95
2675069--2675161	42	2.2	42	94	0	159	35	17	17	30	1.93
2678536--2678723	94	2.0	94	98	0	367	37	15	18	27	1.92
2679729--2680830	84	13.3	84	78	7	1042	30	24	20	25	1.98
2679729--2680830	165	6.7	164	86	2	1254	30	24	20	25	1.98
2679770--2680863	578	1.9	575	85	4	1484	30	24	20	25	1.99
2681304--2681655	37	9.6	36	74	16	194	45	3	7	44	1.48
2685667--2685739	22	3.2	23	75	17	64	63	0	2	34	1.09
2686052--2686082	15	2.1	15	93	0	53	6	35	0	58	1.24
2686075--2686117	14	3.0	15	76	13	54	13	25	9	51	1.71
2686072--2686134	28	2.3	26	82	15	81	14	26	6	52	1.65
2688058--2688096	17	2.3	17	86	8	53	56	2	0	41	1.13
2690348--2690373	13	2.0	13	100	0	52	15	30	23	30	1.95
2695633--2695716	42	2.0	42	97	0	159	34	16	17	30	1.93
2698504--2698569	12	5.6	12	85	3	80	12	15	46	25	1.80
2698506--2698569	23	2.7	24	80	4	76	12	14	46	26	1.79
2698567--2698629	24	2.6	25	78	16	71	44	0	0	55	0.99
2698663--2698706	13	3.5	13	81	3	54	18	15	47	18	1.83
2702754--2702816	33	1.9	33	90	0	99	20	22	34	22	1.96
2709564--2709605	22	1.9	22	85	0	57	19	9	2	69	1.28
2711935--2712000	29	2.3	29	91	0	105	15	25	25	33	1.95
2714476--2714582	23	4.7	23	86	0	133	30	24	25	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2714468--2714582	46	2.5	46	82	0	149	32	23	24	20	1.98
2714793--2714833	21	2.0	21	95	0	73	46	17	2	34	1.61
2719675--2719766	23	4.0	23	86	0	112	38	22	20	18	1.94
2719999--2720052	28	1.9	28	85	7	74	33	24	9	33	1.87
2722267--2722388	32	3.8	32	84	4	156	18	27	27	26	1.98
2724400--2724519	35	3.3	36	89	5	181	43	20	5	31	1.73
2724451--2724511	21	3.2	21	65	29	64	42	21	4	31	1.74
2724402--2724546	35	4.1	36	83	11	142	41	19	6	33	1.76
2728512--2728547	13	2.8	13	91	0	54	41	27	11	19	1.85
2728931--2729044	35	3.2	36	90	5	178	42	20	4	32	1.71

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23