genome.fa.s8719.2.7.7.80.10.50.1000.11.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

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

This is table  11  of  18  ( 2140 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)
2751773--2751986	39	5.6	39	90	4	314	46	1	6	44	1.40
2751781--2752012	39	6.3	35	82	10	136	46	1	6	45	1.39
2751971--2752032	26	2.4	26	94	0	106	43	0	6	50	1.28
2752023--2752121	20	5.5	18	69	23	66	34	1	7	57	1.33
2752040--2752084	16	2.6	17	82	6	56	37	2	8	51	1.46
2751997--2752087	32	2.7	33	81	13	89	38	1	7	52	1.37
2752072--2752150	7	11.1	7	75	18	51	25	2	2	69	1.13
2753362--2753407	19	2.4	19	89	7	67	15	4	0	80	0.86
2759317--2759383	33	2.0	33	97	0	125	25	16	26	31	1.96
2768540--2768583	23	1.9	23	90	9	72	38	20	6	34	1.79
2773345--2773379	18	1.9	18	88	0	52	28	17	0	54	1.43
2778085--2778145	27	2.3	27	97	0	113	31	14	19	34	1.92
2778620--2778690	24	3.0	24	82	0	97	23	19	16	39	1.92
2784817--2784885	34	2.0	34	97	0	129	31	10	27	30	1.90
2789894--2790016	58	2.1	58	80	8	142	30	18	21	29	1.97
2791074--2791215	46	3.1	46	91	2	223	23	21	10	43	1.84
2791003--2791430	214	2.0	214	98	0	820	24	22	8	44	1.80
2791290--2791842	45	12.2	45	88	2	752	24	21	12	41	1.87
2797489--2798086	45	13.2	45	89	0	836	23	22	13	40	1.89
2799333--2799421	38	2.4	38	88	7	137	12	10	39	38	1.77
2799991--2800036	18	2.7	18	93	6	78	28	32	6	32	1.83
2802652--2802776	29	4.4	28	81	8	135	34	21	6	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2802631--2802769	58	2.4	58	81	4	163	32	22	6	38	1.80
2802631--2802795	57	2.8	58	80	6	165	33	22	6	37	1.80
2809341--2809480	29	4.8	29	77	10	133	33	24	7	35	1.83
2809317--2809484	58	2.9	57	78	6	162	34	23	6	35	1.81
2815277--2815691	228	1.8	230	87	2	629	36	6	20	36	1.78
2823032--2823057	6	4.3	6	100	0	52	15	0	0	84	0.62
2829006--2829046	9	4.6	9	100	0	82	56	0	43	0	0.99
2844279--2845439	199	5.8	200	86	2	1505	38	14	13	33	1.86
2844279--2845439	399	2.9	398	87	2	1643	38	14	13	33	1.86
2848060--2848090	15	2.1	15	93	0	53	32	6	12	48	1.67
2848409--2848484	6	12.7	6	83	5	91	32	11	5	50	1.62
2848409--2848484	30	2.5	30	89	4	109	32	11	5	50	1.62
2850064--2850111	21	2.3	21	92	0	78	33	12	10	43	1.77
2850463--2850535	20	3.7	20	77	5	58	50	8	16	24	1.72
2853455--2854326	108	7.8	107	69	9	517	33	16	13	36	1.88
2853007--2854382	451	3.1	452	89	1	2044	33	15	13	36	1.88
2853007--2854382	225	6.1	226	88	1	2008	33	15	13	36	1.88
2854932--2854994	2	31.5	2	96	0	117	47	1	0	50	1.10
2856189--2856504	158	2.0	158	100	0	632	41	9	17	31	1.81
2860317--2860359	18	2.4	18	100	0	86	25	11	32	30	1.91
2869095--2869145	24	2.0	26	92	7	88	64	7	19	7	1.44
2871149--2871174	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2871505--2871585	24	3.4	23	79	1	81	61	16	9	12	1.56
2871544--2871600	10	5.4	10	76	12	51	61	14	10	14	1.57
2871767--2871837	14	5.1	14	73	0	61	57	15	12	14	1.65
2871767--2871836	28	2.5	28	83	0	77	57	15	12	14	1.66
2874462--2874542	27	3.0	27	96	0	144	34	2	25	37	1.70
2881314--2881347	17	2.0	17	94	0	59	8	52	0	38	1.33
2886487--2886529	5	8.8	5	87	12	63	81	0	18	0	0.69
2886469--2886548	13	6.1	13	80	11	74	82	0	15	2	0.77
2886480--2886529	9	5.4	9	86	9	66	82	0	18	0	0.68
2886469--2886555	18	4.8	18	79	14	92	81	0	14	3	0.82
2886469--2886548	6	13.3	6	77	17	78	82	0	15	2	0.77
2887224--2887264	20	2.2	19	86	8	57	78	0	17	4	0.93
2894729--2894766	18	2.1	18	90	0	58	31	36	10	21	1.87
2903583--2903627	3	14.7	3	82	13	56	35	0	2	62	1.08
2903569--2903611	12	3.4	12	83	6	50	44	0	0	55	0.99
2903586--2903616	15	2.1	15	100	0	62	38	0	0	61	0.96
2905788--2905828	16	2.7	15	92	7	66	34	4	4	56	1.42
2905788--2905837	16	3.3	15	88	5	57	30	6	8	56	1.52
2910191--2910235	23	2.0	23	100	0	90	51	22	17	8	1.73
2911233--2911301	32	2.2	32	83	0	84	34	17	15	31	1.92
2911241--2911316	32	2.4	32	84	0	89	32	18	19	28	1.96
2911566--2912020	126	3.6	124	86	2	613	30	23	18	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2914770--2914813	5	8.8	5	92	0	52	79	6	2	11	1.01
2931298--2931338	11	3.8	11	80	6	57	75	9	12	2	1.13
2950398--2950587	95	2.0	95	100	0	380	31	23	13	31	1.93
2968570--2968610	2	20.5	2	84	0	55	43	0	7	48	1.30
2969057--2969122	31	2.1	31	82	0	78	39	6	4	50	1.48
2974042--2974083	21	2.0	22	90	4	68	33	2	11	52	1.51
2974277--2974357	41	2.0	41	97	0	153	29	18	20	30	1.97
2975586--2975623	3	12.7	3	100	0	76	68	0	0	31	0.90
2977861--2977905	20	2.2	20	92	0	72	28	15	22	33	1.95
2980634--2980679	20	2.3	20	88	0	65	32	23	17	26	1.97
2990018--2990196	44	4.1	44	76	9	154	30	17	20	31	1.96
2991800--2991872	19	3.6	19	76	9	65	2	20	1	75	1.00
2991800--2991920	22	5.5	22	69	16	72	4	21	0	73	1.05
2999472--2999513	21	2.2	18	87	12	57	23	16	14	45	1.84
3004271--3004679	192	2.1	193	82	2	482	36	12	11	39	1.81
3005534--3005947	206	2.0	207	98	1	805	38	15	20	25	1.92
3010008--3010060	20	2.7	20	88	5	72	41	18	18	20	1.91
3011780--3011812	17	1.9	17	100	0	66	48	6	9	36	1.60
3029614--3029754	72	2.0	72	97	2	266	31	8	17	41	1.80
3029849--3029930	17	4.8	17	82	8	103	37	14	8	39	1.77
3032086--3032138	21	2.8	19	76	15	56	52	1	28	16	1.54
3034850--3034892	20	2.2	20	86	0	59	30	11	20	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3035123--3035174	27	1.9	27	100	0	104	30	21	23	25	1.99
3042564--3042598	13	2.7	13	86	0	52	11	25	0	62	1.28
3045469--3045520	27	1.9	27	100	0	104	30	21	23	25	1.99
3046315--3047520	601	2.0	604	83	4	1544	28	22	16	33	1.95
3047585--3047635	12	4.1	12	78	16	59	15	5	9	68	1.36
3058221--3058250	16	1.9	15	93	6	51	93	0	6	0	0.35
3080299--3080377	39	2.0	39	95	0	140	26	7	32	32	1.85
3082037--3082096	22	2.7	22	84	0	75	30	20	23	26	1.98
3088426--3088820	195	2.0	197	97	2	751	29	22	18	30	1.97
3092185--3092225	20	2.1	19	86	9	55	24	17	19	39	1.92
3095157--3095320	82	2.0	82	100	0	328	24	32	14	28	1.94
3103473--3103653	90	2.0	90	100	0	362	21	25	8	44	1.81
3108283--3108398	56	2.1	56	100	0	232	32	13	21	31	1.92
3113585--3113634	15	3.4	15	74	20	52	8	14	0	78	0.97
3113594--3113640	12	4.0	12	83	2	60	4	14	0	80	0.85
3113628--3113659	17	1.9	17	93	6	57	0	15	6	78	0.95
3114377--3114416	21	1.9	21	89	0	62	32	30	12	25	1.92
3114442--3114480	19	2.1	19	95	0	69	20	38	15	25	1.92
3114377--3114606	64	3.5	65	77	11	197	30	27	16	26	1.96
3120098--3120177	24	3.5	22	78	14	92	22	26	23	27	2.00
3122802--3122840	19	2.1	19	90	0	60	20	38	12	28	1.89
3131504--3131551	24	2.0	24	84	8	62	22	18	18	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3139560--3139774	45	4.7	45	86	3	288	42	8	20	28	1.81
3139560--3139773	91	2.3	91	87	2	304	42	8	19	28	1.81
3148477--3148867	194	2.0	197	98	1	761	33	19	10	36	1.86
3149036--3149148	45	2.5	44	85	1	154	31	20	5	42	1.74
3162450--3162501	14	3.6	14	76	5	50	28	19	23	28	1.98
3165744--3165853	31	3.4	31	70	22	91	39	20	20	20	1.93
3165745--3165872	67	1.9	67	88	3	195	37	22	21	18	1.94
3167716--3167768	15	3.6	15	80	12	65	28	24	24	22	2.00
3167703--3167751	15	3.5	13	81	13	53	26	26	20	26	1.99
3167703--3167768	29	2.3	28	84	7	80	27	25	22	24	2.00

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