genome.fa.s8162.2.7.7.80.10.50.1000.12.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: VEPZ01008162.1 Hibiscus syriacus cultivar Beakdansim tig00110733_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3688897

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

This is table  12  of  16  ( 1865 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)
2620973--2621067	39	2.6	34	73	12	91	41	6	6	46	1.54
2621042--2621114	20	3.7	20	77	14	87	47	1	5	45	1.34
2621045--2621137	40	2.4	39	78	10	100	46	3	6	44	1.45
2621282--2621352	30	2.4	29	78	4	70	43	7	14	35	1.72
2621919--2621952	17	2.0	17	88	0	50	38	2	11	47	1.55
2622693--2622785	39	2.4	39	85	7	118	16	29	22	32	1.95
2628326--2628381	30	1.9	29	82	13	71	25	8	14	51	1.70
2629603--2629769	2	79.0	2	66	16	70	41	3	5	49	1.43
2629719--2629800	33	2.5	32	84	4	101	43	6	4	45	1.50
2629641--2629777	13	10.1	13	70	16	59	41	2	5	49	1.42
2629792--2629850	24	2.4	24	91	2	91	42	3	3	50	1.35
2630008--2630064	26	2.1	27	87	9	82	45	5	1	47	1.35
2630050--2630128	11	7.4	11	68	16	58	43	2	6	48	1.42
2630061--2630128	20	3.3	20	78	15	68	44	2	5	47	1.42
2629973--2630117	79	1.8	79	84	7	197	44	4	3	47	1.41
2630036--2630166	30	4.3	30	73	16	101	45	3	4	45	1.42
2630132--2630190	24	2.4	24	77	8	57	42	3	3	50	1.35
2631766--2631804	19	2.0	19	85	5	51	15	38	12	33	1.85
2638192--2638295	37	2.8	37	76	0	109	29	16	13	40	1.87
2638282--2638359	36	2.2	36	79	4	86	30	17	7	43	1.77
2638453--2638629	72	2.5	71	80	4	203	30	24	11	33	1.90
2638150--2638735	74	8.0	71	75	9	347	29	20	10	39	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2638151--2638736	147	4.0	144	74	7	448	29	20	10	39	1.87
2640672--2640709	17	2.2	17	90	0	58	65	13	10	10	1.47
2642122--2642166	20	2.2	20	88	7	65	75	8	4	11	1.17
2642128--2642175	15	3.3	14	82	8	51	79	4	6	10	1.05
2642207--2642248	18	2.3	18	88	8	59	47	9	0	42	1.36
2642234--2642299	27	2.4	27	100	0	132	51	9	0	39	1.34
2642317--2642372	19	3.1	19	80	17	73	46	5	3	44	1.43
2642414--2642475	24	2.6	23	83	16	81	45	11	0	43	1.40
2642386--2642482	25	4.1	25	78	17	91	46	9	1	43	1.42
2651021--2651072	15	3.4	15	79	12	52	63	1	9	25	1.35
2651880--2651941	23	2.7	22	80	9	70	58	9	3	29	1.46
2657603--2657664	23	2.7	23	82	2	79	56	9	1	32	1.41
2661261--2661812	45	12.3	45	87	2	795	22	21	12	43	1.86
2662228--2662343	40	2.9	40	86	1	160	25	12	19	42	1.86
2662276--2662502	81	2.8	80	81	4	247	29	19	16	34	1.93
2662226--2662644	41	10.3	41	77	4	310	29	20	16	33	1.94
2665853--2665885	16	1.9	18	88	11	52	0	12	9	78	0.95
2677366--2677404	19	2.1	19	90	0	60	20	35	17	25	1.95
2677352--2677514	65	2.5	65	82	3	204	30	26	15	26	1.96
2678851--2679064	117	1.8	118	81	7	265	50	7	16	25	1.72
2679600--2679639	20	2.0	21	85	14	57	37	15	5	42	1.68
2679599--2679643	20	2.2	20	80	11	56	40	13	4	42	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2684601--2684639	19	2.1	19	95	0	69	20	38	15	25	1.92
2684538--2684746	65	3.2	64	82	8	203	30	26	16	26	1.97
2684587--2684747	65	2.5	65	85	3	209	31	26	15	26	1.96
2685912--2686302	45	8.7	45	91	1	615	21	22	12	42	1.87
2689053--2689082	15	2.1	15	93	6	53	43	6	23	26	1.78
2691343--2691613	134	2.0	134	97	0	515	41	3	21	33	1.71
2693925--2693953	12	2.4	12	100	0	58	48	0	24	27	1.51
2701199--2701264	29	2.2	29	91	2	105	46	3	15	34	1.61
2702387--2702475	20	4.3	20	83	7	90	26	22	14	35	1.93
2702448--2702498	20	2.5	20	80	0	57	29	19	13	37	1.90
2702503--2702752	20	12.1	20	73	8	124	26	24	16	32	1.96
2702503--2702752	40	6.1	40	68	10	153	26	24	16	32	1.96
2702619--2702748	60	2.2	60	82	0	152	28	23	13	34	1.92
2702777--2702877	39	2.6	39	91	1	157	31	17	26	23	1.97
2702771--2702940	20	8.2	20	76	10	153	31	18	24	25	1.97
2703012--2703081	20	3.4	20	73	7	59	30	12	27	30	1.93
2704183--2704240	22	2.6	22	86	0	80	22	41	15	20	1.90
2704610--2704695	20	4.4	20	86	4	104	11	15	23	50	1.76
2706605--2706703	34	2.9	34	84	3	137	46	19	19	15	1.84
2706785--2706832	20	2.4	20	86	6	62	20	18	27	33	1.96
2706825--2706862	20	1.9	20	100	0	76	15	10	23	50	1.75
2707330--2707452	42	2.9	42	82	0	138	22	36	17	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2707335--2707452	21	5.6	21	76	0	110	22	36	17	22	1.95
2708957--2709040	20	4.2	20	92	3	116	44	25	17	13	1.85
2708984--2709221	40	6.1	39	80	8	191	29	19	23	27	1.98
2709003--2709168	60	2.8	60	84	5	147	29	20	22	27	1.99
2709037--2709230	20	10.0	20	84	6	256	24	19	22	32	1.97
2709201--2709483	140	2.0	140	96	0	521	44	14	12	27	1.82
2709541--2709575	18	1.9	18	94	0	61	17	2	25	54	1.57
2711611--2711647	14	2.6	14	91	4	56	5	21	21	51	1.68
2711837--2711890	24	2.2	24	86	0	72	40	18	18	22	1.91
2712712--2712842	20	6.5	20	81	5	165	25	18	27	29	1.98
2712712--2712902	61	3.1	61	78	3	163	27	18	25	28	1.98
2715418--2715460	18	2.4	18	88	0	59	20	9	0	69	1.15
2715500--2715545	8	5.8	8	78	16	51	23	2	0	73	0.94
2715485--2715558	20	3.5	20	82	15	71	22	6	0	70	1.11
2715517--2715568	12	4.6	12	83	11	65	19	9	0	71	1.13
2715604--2715703	5	18.4	5	70	20	51	16	5	4	75	1.14
2715574--2715665	42	2.2	41	80	9	96	19	9	2	68	1.28
2715596--2715676	42	2.0	41	87	2	117	14	9	2	72	1.20
2715647--2715682	11	3.4	11	92	3	56	11	0	5	83	0.80
2715753--2715779	14	1.9	14	100	0	54	25	7	0	66	1.17
2720060--2720200	42	3.3	42	67	14	108	29	26	25	17	1.98
2720005--2720200	86	2.3	86	92	0	320	30	25	24	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2720267--2720784	200	2.6	197	84	4	644	33	19	20	26	1.97
2721051--2721116	2	34.5	2	91	8	111	48	0	0	51	1.00
2721757--2721799	18	2.4	18	92	0	68	18	6	2	72	1.19
2721826--2721884	12	4.3	13	79	16	66	23	8	0	67	1.17
2721832--2721861	15	1.9	16	93	6	53	26	6	0	66	1.16
2721824--2721895	20	3.4	20	75	12	65	22	9	0	68	1.19
2723022--2723129	33	3.2	34	80	11	98	33	0	3	62	1.12
2723053--2723125	34	2.2	33	85	7	96	36	0	1	61	1.05
2723053--2723130	15	4.8	17	70	20	60	37	0	1	61	1.04
2724322--2724378	24	2.4	24	84	0	78	38	1	1	57	1.19
2726021--2726076	29	1.9	29	82	7	69	53	0	3	42	1.18
2726034--2726088	19	2.7	21	77	11	60	52	0	5	41	1.24
2728341--2728369	12	2.3	13	94	5	51	31	0	0	68	0.89
2732098--2734169	105	19.7	106	93	1	3361	33	25	18	22	1.96
2736553--2736581	12	2.3	13	94	5	51	31	0	0	68	0.89
2739971--2740176	98	2.1	98	95	0	376	26	12	15	46	1.80
2741464--2741540	20	3.8	19	78	8	73	22	18	24	35	1.96
2744108--2744189	41	2.0	42	87	2	121	23	19	24	32	1.97
2745223--2745295	32	2.3	32	87	0	110	31	12	17	38	1.87
2754316--2754392	16	4.7	15	78	15	64	76	0	7	15	1.00
2754324--2754396	26	2.8	26	81	10	78	76	0	6	16	0.99
2754345--2754400	10	5.6	10	76	16	62	76	0	5	17	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2754335--2754399	22	2.9	22	82	11	78	76	0	6	16	0.97
2754714--2754783	2	38.0	2	77	16	62	54	1	1	42	1.18
2754715--2754788	26	2.8	26	79	8	78	52	1	4	41	1.28
2754705--2754794	40	2.2	40	76	7	92	57	2	3	36	1.27
2755260--2755353	34	2.6	37	83	10	131	30	12	14	41	1.84
2756103--2757165	106	10.0	106	91	0	1644	22	18	25	33	1.97
2757170--2757303	37	3.7	36	79	5	144	38	14	18	27	1.90
2758051--2758126	22	3.5	22	80	3	100	23	10	26	39	1.87
2758732--2758821	24	3.6	24	88	7	110	1	13	6	78	0.99
2758754--2758837	34	2.5	32	77	20	91	0	13	5	80	0.87

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