genome.fa.s1478.2.7.7.80.10.50.1000.1.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: VEPZ01001478.1 Hibiscus syriacus cultivar Beakdansim tig00002868_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  623040

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 580 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)
982--1013	12	2.4	14	80	20	50	37	15	0	46	1.46
988--1014	12	2.2	12	100	0	54	37	14	0	48	1.45
1528--1588	25	2.4	26	89	10	99	44	13	4	37	1.65
3610--3687	23	3.3	24	87	5	88	53	15	11	19	1.71
21687--21724	19	2.0	19	100	0	76	52	0	21	26	1.47
23156--23211	21	2.7	21	88	0	85	30	23	23	23	1.99
24914--24976	23	2.7	23	90	0	99	17	26	26	28	1.98
30075--30113	20	2.0	20	89	0	60	51	15	12	20	1.76
31459--31558	42	2.4	42	79	0	119	31	35	16	18	1.92
31672--31721	21	2.4	21	83	6	66	20	14	32	34	1.92
32128--32245	41	2.9	41	90	1	173	21	36	19	22	1.95
32124--32245	42	2.9	42	90	1	183	20	36	19	22	1.95
32129--32245	21	5.6	21	83	2	146	21	36	19	22	1.95
33342--33744	207	1.9	206	92	3	675	27	7	22	42	1.80
34262--34333	36	2.0	36	97	0	135	26	22	26	25	2.00
39178--39217	21	1.9	21	90	10	64	32	10	5	52	1.56
41134--41314	65	2.8	64	81	8	190	27	18	25	28	1.98
41607--41651	23	2.0	23	90	0	72	40	13	8	37	1.76
44428--44480	21	2.5	21	81	6	72	20	26	18	33	1.96
44470--44645	41	4.3	41	73	11	162	39	17	20	22	1.92
44470--44645	21	8.5	21	79	5	155	39	17	20	22	1.92
44507--44686	82	2.2	83	89	1	281	40	19	18	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44489--44694	41	5.0	41	75	9	161	38	18	19	22	1.93
44634--44768	20	6.7	20	83	5	128	31	25	19	24	1.98
44572--44688	21	5.7	21	73	17	84	41	21	17	19	1.91
45300--45328	14	2.0	15	93	6	51	48	24	20	6	1.74
45314--45369	20	2.8	20	94	0	94	41	23	21	14	1.89
46959--47050	41	2.2	41	79	11	107	23	14	39	22	1.91
46990--47046	21	2.8	20	73	7	60	26	12	35	26	1.92
47363--47463	20	5.1	20	86	4	114	34	22	15	26	1.95
47389--47474	20	4.3	20	81	8	86	34	24	19	20	1.96
47468--47522	19	3.2	19	70	24	57	49	20	16	14	1.80
47468--47558	33	2.8	33	86	0	128	49	23	15	12	1.77
47562--47637	19	4.2	19	67	17	54	14	22	21	42	1.89
47602--47639	20	1.9	19	89	5	58	18	26	23	31	1.97
48200--48247	18	2.6	19	83	3	71	14	12	43	29	1.82
49567--49625	20	3.0	20	87	0	73	44	22	18	15	1.87
49888--49931	22	2.0	22	95	0	79	18	15	45	20	1.85
50118--50190	20	3.7	20	84	0	92	27	17	26	28	1.98
50180--50231	20	2.5	21	87	3	70	21	23	17	38	1.93
50221--50273	21	2.5	22	81	6	74	33	18	26	20	1.96
51173--51212	21	1.9	21	84	0	53	27	0	22	50	1.50
51313--51349	15	2.5	15	95	0	65	40	0	8	51	1.32
51300--51339	19	2.1	19	95	0	71	42	0	7	50	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51723--51808	7	12.3	7	81	0	82	20	0	30	48	1.50
51723--51808	14	6.1	14	86	5	120	20	0	30	48	1.50
51883--51934	15	3.4	15	91	2	86	40	1	7	50	1.42
51951--51993	22	2.0	22	85	0	59	53	0	0	46	1.00
52316--52368	21	2.5	21	87	0	70	22	1	24	50	1.59
52329--52388	21	2.9	21	84	0	66	28	0	23	48	1.51
52314--52384	7	10.1	7	75	6	54	25	1	26	46	1.61
52463--52509	15	3.1	15	93	0	85	40	0	8	51	1.33
52813--52837	13	1.9	13	100	0	50	44	32	8	16	1.76
52883--52936	21	2.6	21	84	0	72	24	1	27	46	1.63
52887--52946	7	8.7	7	74	1	50	23	1	26	48	1.60
51173--52946	580	3.1	579	93	1	3005	35	8	12	43	1.73
52888--52946	21	2.8	20	82	7	57	23	1	25	49	1.60
55497--55667	20	8.6	20	83	5	141	35	26	18	20	1.95
55497--55686	40	4.8	40	86	5	208	36	25	17	20	1.94
55497--55686	60	3.2	60	82	5	215	36	25	17	20	1.94
55531--55686	20	7.8	20	87	4	174	35	25	17	21	1.95
56368--56414	24	2.0	24	87	8	69	25	14	21	38	1.92
56589--56613	12	2.1	12	100	0	50	72	0	28	0	0.86
58894--59129	19	13.4	19	79	17	287	47	18	21	13	1.82
58947--59001	14	3.6	14	73	21	56	45	20	23	10	1.82
58894--59151	33	7.5	33	90	6	347	46	18	21	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59089--59143	14	3.6	14	76	21	56	47	20	21	10	1.80
58894--59151	142	1.8	138	92	4	437	46	18	21	13	1.83
59158--59259	19	5.6	19	85	12	151	14	23	17	44	1.86
59366--59401	13	2.6	14	86	4	56	47	22	0	30	1.52
61305--61425	19	6.6	19	81	10	135	45	23	19	11	1.83
61421--61549	19	7.3	19	75	17	125	8	17	28	45	1.77
61421--61512	33	2.8	33	93	3	150	7	18	28	45	1.76
61597--62065	93	5.1	93	98	0	895	46	18	12	22	1.83
63761--63886	19	7.1	19	68	21	85	45	20	23	11	1.83
63808--63864	14	3.7	14	75	20	60	43	22	24	8	1.81
63761--63881	33	3.5	33	89	6	170	46	20	22	10	1.81
63898--63954	14	3.7	14	75	20	60	8	24	22	43	1.81
63912--64000	19	4.9	19	72	15	80	11	23	21	43	1.84
63882--64000	33	3.4	33	88	6	157	10	22	22	44	1.82
64092--64162	33	2.2	33	94	0	124	47	16	23	11	1.79
64344--64398	22	2.5	22	81	0	74	20	16	40	23	1.91
64545--64738	20	9.6	20	79	5	203	19	20	24	35	1.95
64547--64718	60	2.8	60	84	0	236	20	19	25	34	1.96
64544--64859	60	5.2	60	77	8	232	20	18	25	36	1.95
64705--64802	20	4.8	20	77	3	79	21	18	23	36	1.95
64705--64861	61	2.6	60	80	7	176	19	17	25	38	1.93
64705--64861	41	3.9	41	70	14	110	19	17	25	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65041--65509	210	2.2	209	82	7	554	28	11	7	52	1.65
66765--66862	7	14.0	7	80	0	70	21	1	29	47	1.57
66767--66862	14	6.9	14	82	0	84	20	1	29	48	1.56
66767--66862	21	4.6	21	76	0	84	20	1	29	48	1.56
66937--66981	23	1.9	24	95	4	83	42	2	4	51	1.34
66258--67376	589	1.9	584	94	1	1981	35	9	12	43	1.74
67352--67417	7	9.4	7	81	0	60	22	1	31	43	1.62
66254--67562	589	2.3	551	78	11	1592	35	8	11	43	1.72
67491--67535	17	2.9	15	81	12	63	40	0	6	53	1.27
67491--67535	15	2.8	17	80	13	67	40	0	6	53	1.27
68046--68127	38	2.2	37	84	8	103	28	25	0	46	1.53
68046--68127	20	4.3	19	79	13	89	28	25	0	46	1.53
68241--68345	15	6.9	15	69	20	56	44	2	5	46	1.41
68314--68349	18	2.1	18	94	5	65	50	0	5	44	1.25
68436--68936	210	2.4	207	84	6	603	27	11	7	52	1.65
79105--79131	11	2.5	11	100	0	54	55	7	18	18	1.65
79188--79841	182	3.6	182	89	1	989	42	14	16	26	1.87
81706--81761	24	2.4	23	85	8	78	42	0	5	51	1.24
82402--82440	18	2.2	18	100	0	78	56	0	38	5	1.22
82762--82807	19	2.4	19	96	0	83	30	2	10	56	1.46
83256--84404	200	5.8	201	85	6	1463	38	13	15	32	1.86
83286--84404	385	2.8	397	84	4	1215	38	13	15	32	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
85893--85926	6	5.7	6	89	0	50	44	5	32	17	1.73
88739--88768	15	2.0	15	100	0	60	46	20	6	26	1.75
88876--89814	199	4.8	198	81	8	1106	38	13	15	31	1.87
88876--89813	196	4.8	197	82	8	1086	38	13	15	31	1.87
88872--89615	395	1.9	394	88	1	1134	38	14	15	31	1.87
89425--89793	177	2.1	180	84	3	478	39	14	16	29	1.88
93890--94552	200	3.3	197	83	4	789	41	14	13	30	1.84
94792--94816	11	2.3	11	100	0	50	8	24	20	48	1.76
95193--95247	16	3.4	16	79	0	65	21	25	16	36	1.94
95191--95264	32	2.3	32	86	6	105	22	25	16	35	1.95

Tables:   1   2   3   4   5