genome.fa.s8661.2.7.7.80.10.50.1000.1.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: VEPZ01008661.1 Hibiscus syriacus cultivar Beakdansim tig00111659_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1762280

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 822 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)
5915--5983	20	3.8	20	70	21	69	44	21	17	15	1.86
5990--6027	20	1.9	20	94	0	67	21	18	13	47	1.82
7573--7683	42	2.6	42	85	0	132	25	38	12	23	1.90
7624--7683	21	2.9	21	68	22	54	25	40	15	20	1.90
7798--7913	21	5.5	21	67	8	67	18	12	35	32	1.89
7801--7922	63	1.9	63	82	9	151	18	13	35	31	1.91
7864--7960	42	2.3	43	75	5	108	19	12	32	35	1.89
8266--8398	21	6.3	21	80	11	130	21	36	15	26	1.94
10167--10201	6	5.8	6	86	0	52	17	2	20	60	1.49
10160--10200	18	2.3	18	95	0	73	17	2	24	56	1.53
12475--12528	24	2.2	24	90	0	81	44	20	12	22	1.85
12491--12542	24	2.2	24	82	0	59	38	21	15	25	1.92
12654--12687	12	2.8	12	90	0	50	14	0	29	55	1.40
13454--13562	20	5.6	19	73	12	87	35	11	23	29	1.89
13473--13689	40	5.4	40	73	10	147	36	12	21	29	1.90
13507--13577	20	3.6	19	75	16	63	35	9	25	29	1.88
13486--13689	80	2.5	80	75	9	207	37	12	21	28	1.90
13747--13785	20	2.0	20	84	0	51	38	7	17	35	1.79
17401--17445	2	22.5	2	100	0	90	48	0	0	51	1.00
21498--21537	21	1.9	21	94	0	71	22	37	32	7	1.82
26193--28974	711	3.9	711	86	3	3940	29	15	16	37	1.90
39184--39289	44	2.4	44	88	0	149	26	20	11	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41806--41857	3	17.0	3	96	4	95	32	0	0	67	0.91
42725--42781	28	2.0	28	96	0	105	33	17	19	29	1.95
43307--43360	2	27.0	2	100	0	108	50	0	0	50	1.00
43592--43995	157	2.5	159	89	2	589	45	6	18	29	1.74
44623--44656	2	17.0	2	100	0	68	50	0	0	50	1.00
45408--45432	13	1.9	13	100	0	50	44	8	24	24	1.80
47791--47903	30	3.8	30	83	2	93	33	29	21	15	1.94
47818--47920	31	3.4	31	85	4	120	34	26	20	18	1.95
47836--47943	31	3.5	31	86	3	139	35	25	20	19	1.96
50119--50513	131	3.0	131	86	1	567	38	16	10	34	1.83
51157--51239	24	3.3	25	77	12	71	62	12	6	19	1.49
52359--52396	11	3.5	11	85	0	58	0	5	44	50	1.24
52349--52396	22	2.1	23	92	3	80	2	10	41	45	1.50
52359--52408	22	2.3	22	89	0	73	4	6	42	48	1.46
52410--52452	12	3.7	11	84	9	50	79	6	2	11	1.02
52426--52468	6	7.2	6	89	0	50	79	16	0	4	0.90
52529--52585	21	2.7	21	86	8	71	33	7	5	54	1.50
54475--54518	22	2.0	23	90	4	72	59	2	0	38	1.10
55944--56109	72	2.3	73	78	4	192	36	17	18	27	1.93
58550--58672	35	3.5	34	75	11	106	44	4	5	45	1.46
58659--58693	10	3.4	10	88	4	52	28	8	2	60	1.41
58589--58763	91	1.9	89	81	7	210	43	6	3	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64636--64662	2	13.5	2	100	0	54	51	0	0	48	1.00
64932--64980	17	2.9	16	77	11	53	44	2	2	51	1.24
66057--66129	28	2.6	28	95	0	137	32	10	13	42	1.79
66240--66314	39	2.0	37	89	10	116	33	21	12	33	1.90
66233--66326	36	2.5	38	82	6	120	35	20	9	35	1.85
69786--69830	21	2.1	21	87	0	63	22	24	17	35	1.95
69820--69913	20	4.7	20	82	2	107	38	19	21	21	1.94
70110--70175	22	3.0	22	90	0	105	24	39	15	21	1.91
70512--70601	20	4.6	20	80	6	85	16	15	21	46	1.84
70565--70608	20	2.2	20	87	0	61	13	13	18	54	1.71
72471--72649	40	4.8	40	77	14	145	41	21	17	18	1.90
72471--72630	20	8.6	20	77	19	168	42	21	18	18	1.89
72692--72760	20	3.5	20	91	0	102	21	18	21	37	1.94
73088--73129	21	2.2	19	87	12	59	21	35	19	23	1.96
74704--74799	33	2.8	33	90	3	138	43	20	22	12	1.86
74810--74876	20	3.7	19	73	20	72	13	22	19	44	1.85
74814--74909	33	2.9	34	88	3	140	13	23	20	41	1.88
74881--74974	20	4.7	20	92	2	154	18	22	25	34	1.96
77365--77418	24	2.2	24	93	0	90	40	20	18	20	1.91
78255--78304	20	2.5	22	81	18	72	24	18	26	32	1.97
78297--78505	20	10.4	20	84	2	274	20	19	18	41	1.90
78273--78426	40	3.8	38	87	6	164	20	20	18	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
78502--78547	21	2.2	21	92	0	74	39	17	26	17	1.91
86636--86675	21	1.9	21	100	0	80	25	27	22	25	2.00
87367--87630	32	8.3	32	87	3	367	35	21	17	26	1.95
95325--95363	18	2.1	19	85	9	53	33	2	0	64	1.08
96043--96090	23	2.1	23	92	0	78	33	18	8	39	1.81
96423--96497	31	2.4	31	90	0	123	18	9	16	56	1.66
96982--97049	28	2.4	29	97	2	129	57	14	8	19	1.63
101159--101202	13	3.4	13	80	0	52	68	13	2	15	1.31
103260--103293	9	3.9	9	84	7	52	64	2	0	32	1.08
104366--104403	20	1.9	20	84	10	51	42	2	0	55	1.14
105336--105380	21	2.1	21	92	8	74	11	13	28	46	1.77
117961--117993	15	2.1	16	88	5	50	57	0	3	39	1.14
118389--118432	20	2.1	21	87	4	63	22	0	4	72	1.02
118412--118455	24	1.9	24	86	9	65	31	0	2	65	1.05
119667--119778	40	2.8	40	90	0	179	45	16	10	26	1.81
125221--125357	60	2.3	59	79	8	141	37	17	13	30	1.89
125599--125754	31	5.2	30	73	11	124	25	24	16	33	1.95
125999--126133	59	2.3	60	87	6	186	39	14	10	35	1.81
127188--127221	17	2.0	17	88	0	50	58	0	0	41	0.98
131189--131229	15	2.7	15	88	7	57	24	43	9	21	1.83
142137--142175	19	2.0	20	95	5	71	10	25	0	64	1.25
146304--146338	17	1.9	19	88	11	56	20	37	8	34	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
147230--147293	17	3.7	17	78	10	58	71	3	1	23	1.08
147262--147302	22	1.9	21	85	5	55	75	0	0	24	0.80
147337--147745	203	2.0	200	90	3	633	49	6	19	24	1.72
149470--149538	23	3.0	23	76	0	84	33	24	23	18	1.97
150931--150988	20	2.6	22	89	10	84	25	22	20	31	1.98
150978--151133	62	2.5	62	85	3	206	25	25	18	30	1.98
156178--156242	22	3.0	21	75	6	58	15	24	35	24	1.94
167191--167228	18	2.1	19	85	14	53	10	7	10	71	1.32
175757--176040	142	2.0	139	93	4	493	44	5	13	36	1.67
176661--176712	2	27.0	2	92	7	90	50	0	0	50	1.00
176661--176710	17	2.9	17	96	0	91	50	0	0	50	1.00
176661--176713	19	2.8	19	97	0	97	49	0	0	50	1.00
179194--179601	207	2.0	201	93	3	701	27	26	22	23	1.99
191645--191722	24	3.2	24	96	0	147	28	3	25	42	1.72
195500--195539	20	2.0	21	90	5	64	35	27	5	32	1.79
196519--196566	25	1.9	25	100	0	96	35	25	0	39	1.56
196708--196772	30	2.2	29	83	2	76	30	20	9	40	1.83
197931--198031	51	2.0	49	92	3	166	30	19	21	27	1.98
198092--198142	22	2.3	22	100	0	102	37	11	19	31	1.88
199264--199294	15	2.1	15	93	0	53	54	0	0	45	0.99
203410--203440	2	15.5	2	100	0	62	48	0	0	51	1.00
212494--212533	18	2.2	18	90	0	62	20	27	2	50	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
217647--217707	19	2.9	22	69	16	56	45	14	16	22	1.84
221540--221572	17	1.9	17	93	0	57	15	24	42	18	1.88
228570--228622	17	3.3	17	84	10	67	13	22	43	20	1.86
228582--228623	14	2.7	15	89	10	59	9	21	50	19	1.75
229390--229582	69	2.8	70	87	4	257	45	5	11	36	1.65
229575--229617	18	2.4	17	81	11	50	72	0	0	27	0.85
229834--229865	2	17.0	2	87	12	50	50	0	0	50	1.00
230911--231490	123	4.7	123	93	2	952	24	19	16	40	1.91
231961--232006	22	2.1	22	84	8	58	54	2	10	32	1.47
232362--232401	20	2.0	21	85	14	57	10	2	2	85	0.80

Tables:   1   2   3   4   5   6   7