genome.fa.s7999.2.7.7.80.10.50.1000.11.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   40   41   42   43   44   45   46   47   48   
          49   50   

This is table  11  of  50  ( 5918 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)
2649246--2649279	14	2.3	15	90	5	52	82	5	11	0	0.83
2656910--2656942	15	2.2	15	100	0	66	30	0	12	57	1.35
2657092--2657154	33	1.9	33	83	3	83	55	3	4	36	1.37
2657391--2657450	19	3.1	20	80	7	61	51	0	3	45	1.17
2662707--2662807	41	2.4	41	80	11	109	45	4	0	49	1.23
2662727--2662807	42	2.1	37	84	11	99	46	4	0	48	1.23
2665319--2665371	22	2.5	22	78	12	56	64	3	0	32	1.12
2665634--2665665	14	2.1	16	88	11	50	43	0	0	56	0.99
2665669--2665714	23	2.0	23	87	4	67	19	0	8	71	1.11
2670079--2670109	13	2.4	13	100	0	62	35	0	38	25	1.56
2670659--2670690	2	16.0	2	100	0	64	50	0	0	50	1.00
2671928--2671994	24	2.7	25	77	22	70	43	2	0	53	1.16
2680218--2680254	18	2.1	18	89	0	56	24	16	21	37	1.93
2681333--2681430	32	3.2	31	77	11	94	44	0	4	51	1.20
2681589--2681966	192	2.0	185	83	8	467	46	9	4	38	1.58
2687042--2687089	19	2.5	20	89	3	71	33	12	4	50	1.59
2700328--2700364	14	2.4	16	86	8	51	43	2	40	13	1.58
2700922--2700949	14	2.0	14	100	0	56	50	7	21	21	1.72
2706008--2706395	195	2.0	190	91	4	618	39	11	12	37	1.78
2706632--2706754	40	3.1	40	89	2	194	31	8	13	46	1.73
2706615--2706741	39	3.2	39	89	2	200	33	7	14	45	1.71
2713043--2713079	2	18.5	2	100	0	74	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2714783--2714866	31	2.8	31	85	5	102	41	2	14	41	1.58
2716937--2716979	19	2.3	19	91	0	68	16	23	30	30	1.96
2718869--2718975	44	2.4	44	87	0	142	28	17	22	31	1.97
2722588--2722626	20	2.0	20	85	10	53	25	17	10	46	1.80
2727574--2727641	23	3.0	23	84	0	91	17	23	26	32	1.97
2729311--2729467	65	2.4	65	84	4	192	31	17	22	28	1.97
2740673--2740717	19	2.3	19	85	11	56	33	2	0	64	1.06
2740783--2740836	16	3.3	16	75	12	56	38	0	0	61	0.96
2740790--2740843	17	3.3	18	75	19	55	38	0	0	61	0.96
2741540--2741634	24	4.0	23	83	6	118	45	42	6	6	1.55
2741540--2741631	48	1.9	48	86	4	132	46	40	6	6	1.56
2744404--2744441	19	2.0	19	90	10	60	39	2	0	57	1.12
2745456--2745493	19	2.0	20	89	5	60	42	0	2	55	1.14
2745846--2745892	21	2.2	21	85	7	60	44	0	2	53	1.12
2745880--2745947	21	3.4	19	72	11	55	36	0	2	60	1.12
2746409--2746498	33	2.6	36	77	15	91	36	4	2	56	1.32
2747259--2747305	20	2.3	20	78	7	51	42	2	2	53	1.25
2756747--2756818	23	3.2	21	75	11	63	51	1	0	47	1.09
2756916--2756963	21	2.3	21	77	0	51	50	0	4	45	1.21
2760476--2760514	11	3.3	12	83	16	55	33	0	12	53	1.39
2760465--2760513	11	4.2	12	76	19	50	36	0	12	51	1.40
2762737--2762763	13	2.1	13	100	0	54	44	7	18	29	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2779503--2779573	3	23.0	3	85	5	81	40	0	0	59	0.98
2781037--2781335	135	2.2	137	80	8	360	39	7	7	46	1.59
2786250--2786300	9	5.4	9	81	9	66	80	0	19	0	0.71
2791020--2791096	22	3.5	22	96	0	145	33	11	14	40	1.82
2791766--2792951	76	15.6	76	96	0	2129	24	19	21	34	1.96
2792882--2792987	47	2.3	47	93	3	180	26	20	17	34	1.95
2793111--2793180	3	23.0	3	78	8	70	42	0	0	57	0.99
2793115--2793172	15	3.8	15	86	8	82	44	0	0	55	0.99
2803348--2803445	50	2.0	50	87	0	142	29	22	16	31	1.96
2803985--2804043	29	2.0	29	100	0	118	23	13	13	49	1.78
2808658--2808713	28	2.0	27	96	3	103	23	14	14	48	1.80
2813369--2813414	20	2.3	19	85	14	58	50	8	15	26	1.73
2823741--2823786	20	2.3	19	85	14	58	50	8	15	26	1.73
2825224--2825522	55	5.5	55	93	0	476	34	18	17	29	1.94
2830966--2831125	55	2.9	55	81	2	162	31	16	16	35	1.92
2850561--2850606	23	2.0	23	87	4	67	36	17	23	21	1.94
2853190--2853294	24	4.4	24	75	9	88	23	10	16	49	1.76
2854900--2854984	24	3.5	24	80	0	89	21	14	15	49	1.79
2856906--2856939	18	2.0	17	88	11	52	52	8	5	32	1.56
2858703--2858875	47	3.7	47	88	4	253	35	8	28	27	1.86
2859111--2859180	29	2.4	28	76	13	70	25	2	4	67	1.23
2859216--2859270	28	2.0	28	92	0	92	45	25	0	29	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2866472--2866508	16	2.2	18	81	18	53	45	0	0	54	1.00
2889890--2890038	73	2.1	73	87	6	214	34	6	20	38	1.79
2890101--2890153	19	2.7	20	68	14	56	24	13	20	41	1.88
2890228--2890277	20	2.5	19	81	9	64	36	14	24	26	1.93
2895013--2895145	69	1.9	69	92	0	221	30	9	31	27	1.89
2897245--2897301	30	1.9	30	85	7	80	31	3	14	50	1.59
2898531--2898584	23	2.3	23	90	0	81	33	7	37	22	1.82
2913277--2913311	16	2.1	17	94	5	63	42	20	0	37	1.52
2913803--2913830	14	2.0	14	100	0	56	14	21	14	50	1.78
2915689--2915732	21	2.0	22	86	4	63	36	9	13	40	1.76
2917943--2917979	13	2.8	13	95	4	65	70	8	0	21	1.13
2921748--2921800	21	2.5	21	81	6	72	20	26	18	33	1.96
2921851--2921926	21	3.6	21	76	5	73	25	19	15	39	1.91
2921913--2921959	20	2.3	20	85	0	58	36	23	21	19	1.95
2922193--2922245	21	2.5	21	78	6	63	22	26	16	33	1.96
2922220--2922428	41	5.1	41	66	10	106	33	19	18	29	1.95
2922296--2922368	21	3.5	21	79	3	76	23	20	17	38	1.93
2921520--2922409	445	2.0	445	97	0	1699	32	21	15	30	1.95
2922358--2922449	20	4.6	20	80	2	94	40	17	20	21	1.92
2922388--2922451	21	3.1	21	90	2	85	42	15	20	21	1.89
2923042--2923197	19	8.6	19	73	16	125	12	23	20	44	1.85
2923042--2923189	52	2.8	52	87	2	197	12	22	21	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2923107--2923172	33	2.0	34	93	3	116	12	25	24	37	1.90
2926863--2926927	19	3.7	19	74	19	77	44	20	23	12	1.84
2926923--2926976	19	3.2	19	64	33	50	16	22	20	40	1.91
2929243--2929267	12	2.1	12	100	0	50	0	28	0	72	0.86
2929451--2929503	24	2.3	22	83	6	61	37	18	15	28	1.91
2930271--2930320	20	2.5	20	73	0	55	42	22	14	22	1.88
2932053--2932142	40	2.2	42	82	4	112	23	16	37	22	1.93
2932471--2932523	20	2.7	20	87	0	70	33	28	13	24	1.93
2932477--2932566	20	4.8	19	77	14	89	36	24	20	18	1.95
2932497--2932566	18	3.8	18	77	12	72	37	22	22	17	1.94
2932499--2932566	34	1.9	36	85	8	95	38	22	23	16	1.93
2932550--2932608	19	3.4	19	73	22	74	47	18	18	15	1.83
2932550--2932628	33	2.4	33	93	0	131	48	21	18	11	1.80
2932634--2932713	19	4.5	19	78	15	107	12	21	20	46	1.83
2933279--2933326	18	2.7	18	90	0	78	16	12	43	27	1.84
2934631--2934689	20	3.0	20	87	0	73	44	22	18	15	1.87
2934952--2934995	22	2.0	22	95	0	79	18	11	45	25	1.82
2935135--2935212	20	3.9	20	91	0	129	30	12	28	28	1.93
2935128--2935220	40	2.3	40	85	7	134	30	15	25	29	1.95
2935188--2935324	41	3.3	40	87	2	157	22	20	22	34	1.97
2935256--2935326	21	3.4	21	77	11	92	22	21	18	38	1.94
2935128--2935303	20	8.7	20	76	9	110	25	17	24	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2935256--2935340	20	4.1	21	76	10	77	22	21	17	38	1.93
2949676--2949756	23	3.5	23	75	0	72	30	27	22	19	1.98
2950363--2950492	66	2.0	66	80	3	145	23	22	20	33	1.97
2950646--2950684	20	1.9	21	85	15	55	35	30	0	33	1.58
2952761--2952800	14	2.9	14	92	0	62	80	2	0	17	0.83
2955702--2955734	2	16.5	2	100	0	66	51	0	0	48	1.00
2958188--2958495	55	5.6	55	92	1	492	33	17	11	37	1.86
2958839--2958891	19	2.6	21	88	8	74	28	15	16	39	1.89
2961765--2961851	46	1.9	45	83	6	113	31	19	20	28	1.97
2969107--2969150	21	2.1	21	82	0	52	9	43	15	31	1.79

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   40   41   42   43   44   45   46   47   48   
          49   50