genome.fa.s9029.2.7.7.80.10.50.1000.1.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: VEPZ01009029.1 Hibiscus syriacus cultivar Beakdansim tig00112429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  496945

Tables:   1   2   3   

This is table  1  of  3  ( 252 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)
65--438	184	2.0	185	96	3	693	21	12	18	46	1.83
65--438	94	4.1	93	95	4	679	21	12	18	46	1.83
482--610	19	7.3	19	75	17	125	45	28	17	8	1.77
518--610	33	2.8	32	91	4	150	46	27	18	7	1.76
482--610	52	2.5	52	74	14	140	45	28	17	8	1.77
606--739	19	7.6	19	73	18	119	11	19	23	45	1.82
628--684	14	3.7	14	77	20	60	10	21	22	45	1.82
611--739	33	3.8	33	87	5	168	10	18	24	46	1.81
2548--2618	37	1.9	37	97	0	133	29	1	16	52	1.53
2600--2635	14	2.6	14	95	0	63	33	0	22	44	1.53
2742--2843	19	5.6	19	84	13	151	44	17	23	14	1.86
2872--3178	19	17.4	19	79	16	358	14	20	18	47	1.83
2872--3111	71	3.4	71	83	11	355	15	20	17	47	1.83
2840--3178	142	2.4	136	89	6	504	14	20	18	46	1.83
2872--3150	52	5.2	52	90	6	354	14	20	17	47	1.83
5482--5506	12	2.1	12	100	0	50	0	28	0	72	0.86
5681--5727	24	2.0	24	87	8	69	38	21	14	25	1.92
6400--6768	20	18.5	20	86	4	458	20	18	26	34	1.96
7216--7246	16	1.9	16	93	0	53	35	0	6	58	1.24
7820--7877	30	2.0	29	90	10	91	12	34	31	22	1.91
7935--7983	23	2.1	23	100	0	98	8	40	24	26	1.83
7939--7989	23	2.2	23	92	0	84	9	37	25	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7986--8040	24	2.3	24	84	6	76	12	27	36	23	1.91
7986--8037	14	4.0	14	73	19	58	11	28	36	23	1.90
8080--8195	29	4.0	29	94	0	196	22	27	36	13	1.92
8902--8945	23	2.0	24	82	13	58	47	0	4	47	1.22
8877--8935	28	2.0	28	87	6	82	45	0	5	49	1.24
9613--9651	18	2.2	17	90	4	60	58	0	0	41	0.98
12903--12943	2	21.0	2	95	5	75	0	51	0	48	1.00
13208--13252	18	2.5	19	78	10	58	57	2	11	28	1.45
13158--14306	573	2.0	573	93	1	1989	40	9	13	36	1.77
14330--14373	23	2.0	23	86	4	63	52	0	6	40	1.28
23807--23871	31	2.2	30	83	8	80	16	20	18	44	1.87
25618--25676	2	29.5	2	100	0	118	49	0	0	50	1.00
30103--30159	28	2.0	28	100	0	114	38	3	7	50	1.46
31873--31901	15	1.9	15	100	0	58	34	0	0	65	0.93
36040--36330	147	2.0	147	95	0	528	30	11	29	28	1.92
37006--37030	13	1.9	13	100	0	50	68	0	0	32	0.90
40423--40453	16	1.9	16	100	0	62	25	25	32	16	1.96
40424--40464	16	2.6	16	88	0	55	26	26	29	17	1.97
46421--46494	2	37.0	2	100	0	148	50	0	0	50	1.00
53824--53981	79	2.0	79	97	0	298	37	15	17	29	1.91
63443--63471	2	14.5	2	100	0	58	51	0	0	48	1.00
65737--65777	6	6.8	6	82	0	55	12	46	2	39	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
65737--65786	12	4.2	12	94	0	73	12	44	4	40	1.60
68848--68893	20	2.3	20	85	3	67	65	4	10	19	1.41
69537--69568	15	2.1	15	100	0	64	6	56	18	18	1.62
71390--71417	3	9.3	3	100	0	56	32	0	0	67	0.91
72184--72241	27	2.3	25	85	8	73	55	1	3	39	1.27
72200--72284	25	3.4	25	76	12	86	50	3	3	42	1.36
72415--72456	2	21.5	2	95	4	77	50	0	0	50	1.00
72860--72992	66	2.0	66	100	0	266	31	21	18	29	1.96
73676--73705	3	10.0	3	100	0	60	0	33	0	66	0.92
82687--82766	31	2.6	32	86	6	110	30	13	5	51	1.63
84470--84542	29	2.6	29	93	2	121	42	0	46	10	1.39
91558--91594	2	18.5	2	100	0	74	48	0	0	51	1.00
92254--92278	7	3.6	7	100	0	50	60	12	0	28	1.32
93252--93395	76	1.9	76	81	2	173	46	14	11	27	1.79
94634--94759	63	2.0	63	96	0	234	36	9	17	36	1.82
96377--96446	20	3.5	20	100	0	140	31	21	14	32	1.93
96361--96448	40	2.2	41	84	10	128	29	23	13	32	1.93
96377--96490	40	2.8	42	84	9	121	32	21	12	33	1.91
96462--96529	20	3.5	19	80	13	68	27	23	13	35	1.92
97130--97163	12	2.8	12	95	0	59	55	26	0	17	1.42
97293--97342	24	2.1	24	92	0	82	22	20	20	38	1.94
99939--100088	63	2.4	64	88	2	223	51	17	1	30	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100067--100099	13	2.4	14	95	5	59	48	21	0	30	1.50
100538--100579	22	2.0	21	86	13	59	64	7	0	28	1.20
103914--103960	19	2.5	18	86	10	67	42	25	14	17	1.87
104333--104375	22	2.0	22	95	0	77	23	13	39	23	1.90
104533--104581	20	2.5	20	89	0	71	20	12	20	46	1.82
109927--109953	2	13.5	2	100	0	54	51	0	0	48	1.00
111791--113000	596	2.0	596	100	0	2420	33	17	14	34	1.91
112981--113012	2	16.0	2	100	0	64	50	0	0	50	1.00
114024--114189	60	2.8	59	79	6	174	32	22	4	40	1.73
114042--114183	59	2.4	59	78	5	153	31	23	4	40	1.74
114715--114762	23	2.1	23	84	0	60	29	14	10	45	1.78
114721--114795	35	2.1	35	87	4	107	26	17	16	40	1.90
114756--114819	23	2.7	24	78	2	76	25	17	17	40	1.90
115040--115092	27	2.0	27	88	0	79	41	11	16	30	1.84
117009--117051	16	2.7	16	85	0	68	58	18	11	11	1.63
118127--118205	14	5.9	14	81	11	85	55	20	12	11	1.67
118127--118214	38	2.3	38	86	3	115	55	20	12	11	1.67
118147--118216	14	5.3	14	81	13	94	52	24	14	8	1.69
124747--124785	3	13.0	3	100	0	78	66	0	0	33	0.92
125082--125126	23	2.0	23	81	0	54	22	8	11	57	1.60
140870--140903	17	2.0	17	100	0	68	58	5	23	11	1.55
142194--142237	19	2.3	19	88	7	63	34	25	31	9	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
144502--144584	43	1.9	43	92	4	141	25	36	9	28	1.88
150454--150559	25	4.1	26	75	12	78	44	5	0	50	1.25
150484--150543	22	2.6	23	82	10	77	43	6	0	50	1.28
150473--150560	25	3.5	26	80	14	89	43	4	0	52	1.22
152091--152135	21	2.1	21	83	0	54	40	6	13	40	1.71
153872--153924	25	2.1	25	82	6	63	43	7	24	24	1.80
154758--154889	59	2.2	59	91	0	219	24	15	28	31	1.96
159575--159620	3	15.3	3	90	0	74	65	2	2	30	1.16
159832--160051	41	5.2	41	75	8	131	25	17	31	25	1.97
159903--160141	46	5.4	46	73	14	166	24	19	30	25	1.98
159857--160141	41	6.6	43	73	13	174	24	18	30	26	1.98
159778--160181	130	3.2	130	91	2	606	24	18	31	25	1.98
160031--160191	83	1.9	83	84	7	214	24	19	31	24	1.98
159778--160152	43	8.8	42	72	11	246	24	18	31	26	1.97
160210--160263	28	1.9	28	85	7	74	50	12	12	24	1.76
160599--160657	15	3.9	15	93	0	91	45	5	18	30	1.71
160644--160720	31	2.5	30	79	8	75	40	12	12	33	1.82
160814--160938	64	2.0	64	88	1	189	43	11	14	31	1.80
160946--161017	36	2.0	37	83	8	94	43	12	13	30	1.82
160999--161062	28	2.2	28	91	2	101	42	14	7	35	1.74
161049--161151	52	2.0	53	96	1	190	36	17	13	32	1.89
161147--161710	29	19.5	28	73	14	310	47	14	11	27	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
161101--161739	148	4.4	147	96	1	1096	46	14	11	27	1.79
161101--161739	293	2.2	294	94	3	1105	46	14	11	27	1.79
161948--162066	36	3.4	36	78	6	102	36	11	21	31	1.89
161982--162066	36	2.4	36	84	4	109	36	11	21	30	1.89
162018--162250	105	2.3	101	85	6	290	37	12	19	30	1.89
162710--162899	4	47.5	4	98	0	371	24	0	25	50	1.50
164076--164113	11	3.4	11	89	7	58	5	13	10	71	1.30
164772--164812	20	2.0	20	90	0	64	39	12	19	29	1.88
164744--164823	26	3.3	24	72	21	78	38	10	23	27	1.87
164730--164823	46	2.1	45	85	2	125	36	9	25	28	1.87

Tables:   1   2   3