genome.fa.s6573.2.7.7.80.10.50.1000.1.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: VEPZ01006573.1 Hibiscus syriacus cultivar Beakdansim tig00016106_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1218788

Tables:   1   2   3   4   5   6   7   

This is table  1  of  7  ( 727 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)
1--4157	4	1066.8	4	92	6	7144	49	25	0	24	1.52
4163--4331	83	2.0	83	100	0	338	39	19	7	34	1.79
4246--4513	138	1.9	139	96	0	493	42	19	7	30	1.79
5096--5125	15	2.0	15	93	0	51	30	26	10	33	1.89
5413--5568	66	2.4	65	81	10	167	24	19	15	41	1.90
5573--5964	130	3.0	129	80	4	410	26	29	18	25	1.98
6249--6324	3	27.3	3	72	15	65	31	1	3	63	1.21
6249--6324	13	5.5	14	82	6	77	31	1	3	63	1.21
10041--10094	21	2.5	22	85	8	67	27	14	27	29	1.95
10118--10173	22	2.8	20	83	8	69	23	19	28	28	1.98
11058--11109	18	2.9	18	94	0	86	17	19	34	28	1.94
12571--12621	15	3.4	15	83	5	50	37	0	3	58	1.16
12581--12635	7	7.9	7	76	8	58	41	0	1	56	1.10
12576--12621	22	2.1	22	88	8	67	36	0	2	60	1.09
12614--12647	13	2.6	13	95	0	59	52	0	2	44	1.16
13716--14006	161	1.8	161	88	0	447	39	13	16	30	1.87
15874--15928	24	2.5	22	77	16	60	43	1	7	47	1.41
16575--16622	18	2.7	18	100	0	96	58	4	16	20	1.55
18142--18190	19	2.6	19	96	0	89	32	2	10	55	1.45
18538--19700	201	5.8	200	90	1	1767	36	14	17	31	1.90
18538--19701	401	2.9	400	89	2	1773	36	14	17	31	1.90
20327--20358	2	16.0	2	100	0	64	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)
24293--24331	20	2.0	19	85	5	51	46	10	15	28	1.78
23888--24807	200	4.6	198	83	4	1087	38	14	14	33	1.86
23888--24805	399	2.3	398	84	3	1148	38	14	14	33	1.86
26348--26395	19	2.5	19	96	0	87	31	6	10	52	1.60
29119--29620	200	2.5	200	86	4	660	39	15	13	31	1.86
30165--30198	12	2.8	12	90	0	50	14	23	41	20	1.89
30237--30311	36	2.1	37	87	7	109	18	40	9	32	1.83
30660--31214	265	2.1	261	87	6	780	26	12	20	40	1.88
31898--31945	23	2.1	23	84	7	62	39	2	6	52	1.39
39736--39910	90	2.0	89	90	1	278	36	12	6	44	1.68
46853--46878	2	13.0	2	100	0	52	0	50	0	50	1.00
48773--48818	23	2.0	23	83	8	58	60	2	10	26	1.41
48773--48821	24	2.1	23	84	3	62	59	2	10	28	1.41
48865--48934	35	1.9	36	83	11	90	64	4	1	30	1.21
48981--49058	39	2.0	39	100	0	156	33	20	17	28	1.96
49846--49890	22	2.0	22	83	8	56	46	11	4	37	1.60
51532--51588	19	3.0	19	94	0	105	33	21	40	5	1.75
54567--54591	12	2.1	12	100	0	50	64	0	16	20	1.30
54661--54693	12	2.6	13	95	4	59	78	0	12	9	0.95
54696--54728	12	2.6	13	85	9	50	72	0	15	12	1.12
54825--54849	9	2.8	9	100	0	50	60	0	8	32	1.26
54906--54964	28	2.0	31	87	9	88	66	0	5	28	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57096--57302	110	1.9	110	85	2	290	21	17	24	36	1.94
58242--58288	9	5.5	8	81	18	51	2	10	4	82	0.88
58267--58384	62	1.9	59	84	5	155	12	22	12	52	1.73
66286--66589	164	1.9	164	92	0	509	22	26	17	33	1.96
69508--69584	20	3.7	20	76	17	68	24	25	19	29	1.98
72412--72460	23	2.1	24	88	3	73	30	24	20	24	1.98
72421--72473	23	2.5	22	81	9	65	28	26	24	20	1.99
73255--73299	13	3.5	13	90	0	72	17	44	22	15	1.86
73274--73332	8	7.4	8	76	21	54	15	37	25	22	1.93
73289--73322	15	2.1	16	89	10	52	11	35	29	23	1.90
75796--75867	24	3.0	24	90	8	119	25	15	20	38	1.92
77950--77995	23	2.0	24	86	4	67	19	45	21	13	1.84
80519--80634	24	4.8	24	88	6	164	24	15	18	41	1.89
80571--80644	24	3.1	24	86	3	69	21	14	18	44	1.86
80751--80864	45	2.5	45	97	0	210	18	8	37	35	1.82
83321--83379	31	1.9	31	89	0	91	15	27	30	27	1.96
85355--85419	20	2.9	24	80	17	70	29	27	21	21	1.99
89101--89155	20	2.5	22	85	8	69	29	30	20	20	1.97
91521--91559	20	2.0	20	89	0	60	74	5	7	12	1.20
91629--91695	8	8.0	8	75	15	55	79	2	5	11	1.03
91801--91825	9	2.8	9	100	0	50	60	0	8	32	1.26
91882--91945	32	2.0	32	81	6	76	67	1	3	28	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
91935--91963	2	14.5	2	100	0	58	48	0	0	51	1.00
93572--93610	17	2.2	18	90	4	62	15	0	2	82	0.79
93656--93877	79	2.8	77	84	9	288	43	4	6	44	1.52
93738--93819	35	2.3	33	80	15	85	43	3	6	46	1.46
93618--93914	115	2.5	117	78	14	276	42	4	7	45	1.53
93944--93997	26	2.0	27	82	3	65	27	3	0	68	1.06
94358--94400	20	2.2	20	86	0	59	41	20	25	11	1.86
95179--95208	16	1.9	16	93	6	53	26	0	0	73	0.84
95243--95295	17	2.9	18	80	8	63	11	3	3	81	0.96
95236--95284	13	3.8	13	82	15	57	12	2	4	81	0.91
96237--96294	26	2.2	27	79	14	68	58	3	1	36	1.25
96777--96839	30	2.1	31	82	5	76	46	1	6	46	1.38
96972--97057	32	2.7	33	81	5	113	51	0	0	48	1.00
97056--97108	24	2.2	24	89	0	79	26	47	13	13	1.79
97056--97108	12	4.4	12	80	0	61	26	47	13	13	1.79
102279--102328	21	2.3	21	89	3	73	20	24	18	38	1.93
102293--102334	21	2.1	20	91	8	68	19	19	19	42	1.89
103064--103105	14	2.9	14	80	13	50	23	2	0	73	0.94
103159--103228	35	2.0	36	83	8	90	32	4	15	47	1.65
103794--103848	12	4.5	13	86	13	57	29	0	0	70	0.87
103818--103846	3	9.7	3	100	0	58	31	0	0	68	0.89
104600--104649	22	2.3	22	100	0	100	18	8	36	38	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105203--105428	29	7.7	28	71	16	95	16	13	8	61	1.56
105327--105427	29	3.4	29	79	15	116	15	13	7	62	1.53
105309--105454	60	2.4	58	77	11	152	18	13	7	60	1.55
105415--105474	29	2.1	28	82	14	70	25	6	8	60	1.50
108036--108075	21	2.0	20	90	5	62	15	25	15	45	1.84
109338--109414	13	5.0	16	76	20	60	79	6	14	0	0.92
109356--109396	9	4.2	9	85	14	55	82	4	12	0	0.81
109333--109398	5	13.6	5	75	20	52	78	6	15	0	0.93
109345--109423	18	4.3	19	77	20	64	75	7	15	1	1.08
113123--113180	21	2.7	22	89	7	93	34	20	13	31	1.92
113143--113194	21	2.5	20	81	9	59	36	17	19	26	1.94
116604--116651	20	2.4	21	80	13	57	33	14	4	47	1.63
122614--122670	25	2.3	25	100	0	114	49	10	29	10	1.71
125728--125806	22	3.7	21	72	13	63	35	12	24	27	1.92
126143--126417	111	2.5	110	90	1	426	38	9	15	36	1.80
126143--126417	55	5.0	55	90	2	426	38	9	15	36	1.80
126566--127274	81	8.8	81	89	1	1016	35	10	21	31	1.88
128510--128563	22	2.5	22	93	0	90	20	20	18	40	1.91
129628--129661	14	2.4	14	90	0	50	2	17	2	76	1.04
129659--129684	10	2.6	10	100	0	52	23	0	0	76	0.78
131541--131764	111	2.0	111	93	0	385	27	23	14	35	1.93
133995--134026	11	2.9	11	95	0	55	0	34	6	59	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
134451--134477	8	3.4	8	100	0	54	88	0	11	0	0.50
135118--135176	14	3.9	15	77	18	61	61	0	1	37	1.07
135118--135176	19	3.1	18	85	9	73	61	0	1	37	1.07
140395--140726	128	2.6	127	79	4	310	36	15	14	33	1.88
141194--141236	21	2.0	21	86	0	59	53	0	9	37	1.33
141220--141271	27	1.9	27	84	7	70	53	1	3	40	1.30
143987--144022	14	2.6	14	90	0	54	25	13	2	58	1.49
144000--144071	14	4.7	15	73	20	51	22	11	0	66	1.22
147358--147399	2	21.0	2	95	0	75	50	2	0	47	1.14
147614--147686	11	6.7	11	72	12	53	76	2	17	2	1.02

Tables:   1   2   3   4   5   6   7