genome.fa.s9592.2.7.7.80.10.50.1000.13.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   

This is table  13  of  39  ( 4673 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)
2583810--2583923	7	16.4	7	80	9	101	0	36	0	62	1.02
2583820--2583923	42	2.5	43	81	13	135	0	37	0	61	1.03
2591590--2591632	20	2.2	20	86	0	59	37	16	11	34	1.85
2592787--2592878	7	13.3	7	80	11	64	69	0	23	6	1.11
2595255--2595464	65	3.3	63	80	11	221	30	24	19	25	1.98
2595436--2595484	19	2.6	19	84	9	57	24	28	20	26	1.99
2596504--2596583	3	23.3	3	81	18	70	66	0	32	1	1.00
2596506--2596582	7	11.0	7	80	5	84	64	0	33	1	1.01
2596531--2596575	4	12.2	4	82	17	53	71	0	28	0	0.87
2597179--2597230	3	17.3	3	95	0	95	34	1	0	63	1.06
2600482--2600510	2	14.5	2	100	0	58	51	0	0	48	1.00
2607091--2607554	233	2.0	231	99	0	910	29	13	15	42	1.85
2607953--2607985	16	2.0	17	94	5	59	54	3	12	30	1.52
2614811--2614883	22	3.3	22	86	0	110	17	23	41	17	1.90
2630479--2630582	2	56.0	2	83	14	125	53	0	0	46	1.00
2632232--2632294	26	2.5	24	82	9	90	39	6	3	50	1.44
2632237--2632286	13	3.8	13	82	10	66	40	6	4	50	1.46
2632336--2632367	16	2.0	16	93	0	55	43	15	0	40	1.47
2632324--2632384	26	2.4	25	83	10	70	45	13	0	40	1.43
2632376--2632425	24	2.0	25	84	7	66	48	4	6	42	1.46
2633180--2633382	65	3.1	64	78	11	193	27	17	22	32	1.97
2635609--2635769	64	2.5	63	81	5	171	34	17	20	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2636227--2636416	103	1.8	103	98	0	371	24	13	25	36	1.92
2639426--2640091	53	12.5	53	90	3	1002	24	25	18	31	1.97
2639426--2640091	107	6.3	107	91	2	1017	24	25	18	31	1.97
2640101--2640178	37	2.1	37	81	9	88	20	23	16	39	1.92
2641442--2641507	9	8.1	8	83	9	73	13	12	0	74	1.08
2641443--2641494	7	6.7	7	89	6	50	15	9	0	75	1.05
2641438--2641504	31	2.1	32	86	8	93	11	10	0	77	0.99
2641460--2641502	22	1.9	23	85	4	61	11	11	0	76	1.02
2651878--2651937	23	2.7	23	84	2	68	21	26	25	26	2.00
2651905--2651948	22	2.0	22	100	0	88	22	22	27	27	1.99
2657622--2657763	64	2.2	63	86	5	187	36	18	19	26	1.94
2658244--2658461	103	2.1	103	95	0	391	25	12	24	37	1.90
2658478--2658540	23	2.7	23	82	4	83	20	25	26	26	1.99
2660321--2660399	23	3.5	22	74	8	70	26	26	22	24	2.00
2666971--2667036	21	3.1	21	75	20	75	37	3	6	53	1.41
2666969--2667041	23	3.3	23	75	14	91	39	2	5	52	1.39
2666955--2667052	42	2.3	43	84	8	130	38	3	5	53	1.39
2667149--2667255	25	4.4	25	77	12	98	44	8	3	42	1.52
2667205--2667336	14	10.9	14	65	26	54	45	7	3	43	1.47
2667220--2667344	8	17.5	8	65	22	64	46	8	2	42	1.48
2667205--2667552	35	9.3	35	77	13	286	45	9	3	41	1.54
2667241--2667434	22	9.1	21	70	19	86	46	10	2	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2667338--2667441	19	5.4	19	66	22	56	46	11	1	40	1.51
2667474--2667518	22	2.0	22	91	0	72	46	11	2	40	1.52
2667333--2667532	14	13.9	14	67	22	58	45	10	4	40	1.58
2667402--2667515	27	4.2	27	62	18	65	45	10	3	40	1.56
2667507--2667552	22	2.1	22	87	0	65	47	8	6	36	1.60
2676673--2676699	12	2.2	12	100	0	54	40	0	0	59	0.98
2678411--2678475	31	2.1	31	88	5	96	33	12	10	43	1.77
2682123--2682222	22	4.7	22	79	9	100	18	21	32	29	1.96
2682167--2682240	18	3.9	18	75	13	67	17	21	32	28	1.96
2682145--2682241	40	2.4	40	87	0	140	18	21	31	27	1.97
2682955--2683039	43	2.1	41	82	12	104	47	2	0	50	1.14
2685273--2685412	70	2.0	69	88	1	208	34	14	15	35	1.88
2686018--2686092	25	3.0	25	79	13	75	77	8	1	13	1.05
2686040--2686091	16	3.3	15	76	10	50	80	7	1	9	0.97
2691161--2691215	29	1.9	28	88	3	83	61	18	0	20	1.34
2691566--2691595	15	1.9	16	93	6	53	53	0	0	46	1.00
2692656--2692847	54	3.5	55	80	4	194	22	22	21	33	1.97
2692655--2692856	108	1.9	108	82	2	253	24	21	21	32	1.98
2695408--2695492	27	3.2	26	69	24	77	18	22	24	34	1.96
2695386--2695563	54	3.3	53	82	4	221	23	19	24	33	1.97
2697503--2697573	33	2.2	32	85	7	92	39	0	1	59	1.06
2697495--2697577	33	2.4	34	80	13	91	39	0	2	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2697717--2697770	17	3.2	17	72	0	54	31	0	3	64	1.11
2699293--2699340	21	2.3	21	88	0	69	25	39	12	22	1.89
2699344--2699416	21	3.5	21	88	7	112	17	34	27	20	1.95
2699930--2700027	34	2.9	34	87	0	133	56	4	3	36	1.34
2700430--2701036	128	4.7	127	93	2	1036	33	21	24	21	1.97
2701117--2701157	8	5.2	8	82	5	57	36	29	0	34	1.58
2707993--2708022	2	15.0	2	100	0	60	50	0	0	50	1.00
2709644--2709676	17	1.9	17	93	0	57	69	3	0	27	1.03
2718445--2718824	126	3.0	126	90	2	584	25	24	15	35	1.94
2720839--2720893	26	2.1	26	96	0	101	50	9	3	36	1.51
2722646--2722825	90	2.0	90	100	0	360	50	3	4	42	1.39
2722968--2722998	13	2.5	13	94	5	55	32	22	9	35	1.87
2723964--2724062	30	3.4	30	65	10	87	50	14	4	31	1.61
2723964--2724081	58	2.0	58	100	0	236	49	15	3	32	1.61
2724871--2724917	22	2.1	22	88	0	67	25	4	21	48	1.68
2724884--2724917	10	3.2	10	84	15	50	26	2	20	50	1.63
2725418--2725464	20	2.3	20	100	0	94	36	17	0	46	1.48
2727740--2727790	3	16.7	3	76	11	50	33	0	1	64	1.05
2728487--2728528	2	22.5	2	86	13	63	54	0	0	45	0.99
2729754--2729783	15	1.9	16	93	6	53	33	0	0	66	0.92
2730112--2730152	19	2.2	19	86	8	57	51	2	4	41	1.36
2731351--2731388	20	1.9	20	94	0	67	15	10	15	57	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2731350--2731406	26	2.2	26	90	0	87	17	15	14	52	1.75
2734697--2734772	13	6.4	12	77	22	65	82	0	14	2	0.77
2734699--2734759	8	8.0	8	79	17	67	85	0	14	0	0.60
2734699--2734772	28	2.7	27	83	8	80	83	0	13	2	0.74
2734708--2734772	13	5.2	12	87	10	87	84	0	12	3	0.73
2736784--2737001	108	2.0	108	100	0	436	35	14	19	30	1.92
2737655--2738187	40	13.4	40	93	2	878	31	17	11	39	1.85
2737763--2737825	20	3.2	20	62	20	51	31	15	11	41	1.83
2737919--2737982	20	3.2	20	62	16	51	31	15	10	42	1.82
2737992--2738100	23	5.3	23	60	28	64	33	14	11	40	1.81
2738178--2738235	19	3.1	19	64	0	53	25	18	15	39	1.91
2737659--2738286	40	16.0	37	87	5	233	30	17	12	39	1.86
2737655--2738295	80	8.2	78	89	4	435	30	17	12	39	1.86
2738228--2738396	66	2.6	64	84	6	214	28	17	14	39	1.89
2738330--2738387	28	2.1	28	83	6	73	31	10	17	41	1.83
2738358--2738522	73	2.3	73	85	0	222	25	19	14	40	1.89
2739598--2739652	20	2.9	20	72	17	55	49	9	23	18	1.76
2739450--2739666	114	1.9	113	85	8	296	40	15	22	21	1.91
2739871--2740028	82	1.9	83	80	6	187	27	28	15	28	1.96
2740460--2740515	3	18.0	3	81	7	67	32	0	1	66	1.03
2742451--2742491	17	2.5	16	84	7	55	34	0	4	60	1.18
2742833--2742873	19	2.2	19	86	8	57	51	2	4	41	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2744197--2744249	24	2.1	26	86	13	76	60	1	0	37	1.08
2744211--2744251	18	2.3	18	95	0	73	58	0	0	41	0.98
2745794--2745850	25	2.2	25	84	9	71	10	8	0	80	0.90
2745814--2745864	6	7.8	6	79	16	57	5	13	0	80	0.89
2745813--2745853	13	3.1	14	83	16	61	4	12	0	82	0.81
2745815--2745864	19	2.5	22	87	12	72	6	14	0	80	0.90
2745794--2745863	25	2.8	25	82	6	70	10	11	0	78	0.96
2745815--2745912	19	5.2	19	75	15	69	7	18	0	74	1.04
2745816--2745911	13	6.9	13	70	20	54	7	18	0	73	1.05
2745884--2745917	17	2.1	16	88	5	50	2	23	0	73	0.97

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