genome.fa.s1966.2.7.7.80.10.50.1000.1.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: VEPZ01001966.1 Hibiscus syriacus cultivar Beakdansim tig00003973_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  458221

Tables:   1   2   3   

This is table  1  of  3  ( 319 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)
10101--10131	16	1.9	16	100	0	62	51	0	25	22	1.48
14108--14134	3	9.0	3	100	0	54	66	0	0	33	0.92
14133--14158	3	8.7	3	100	0	52	69	30	0	0	0.89
18210--18269	30	2.1	28	85	11	79	51	1	0	46	1.10
18218--18280	30	2.2	28	78	13	65	46	1	3	49	1.27
18276--18308	8	4.2	8	84	7	50	57	0	0	42	0.98
18276--18317	15	2.9	15	82	10	52	57	0	2	40	1.12
18411--18468	29	2.0	29	83	6	73	51	1	1	44	1.21
20269--20327	31	1.9	31	86	10	86	52	11	10	25	1.69
20306--20345	20	2.0	20	90	0	62	45	10	15	30	1.78
22561--22649	23	3.8	23	76	18	85	31	24	24	19	1.98
23655--23697	22	2.0	22	90	9	70	20	27	32	18	1.96
26876--26908	14	2.4	14	90	5	50	48	21	9	21	1.77
26951--26992	21	2.0	22	90	4	68	23	35	23	16	1.95
27707--27795	23	3.8	23	77	15	92	30	24	25	19	1.98
36105--36162	25	2.3	25	79	5	73	39	17	22	20	1.92
42447--42613	91	1.8	92	93	1	291	24	22	14	37	1.92
42653--42706	17	3.1	17	70	15	56	24	18	11	46	1.81
42656--42713	19	3.2	18	66	24	50	18	22	8	50	1.74
42688--42993	136	2.3	136	90	1	481	26	21	17	34	1.95
43285--43591	72	4.2	73	84	5	239	38	15	21	24	1.92
43346--43824	36	13.4	36	83	5	578	37	15	22	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43735--43823	39	2.4	37	86	5	117	40	15	20	23	1.91
43842--44044	76	2.7	75	81	10	234	41	12	16	29	1.85
49827--49934	30	3.6	30	80	6	119	47	8	14	29	1.74
49811--49934	60	2.0	62	84	3	162	48	8	15	28	1.73
49951--49988	20	1.9	20	88	0	58	52	0	10	36	1.36
52668--52816	59	2.5	59	81	1	145	45	6	16	30	1.73
58135--58176	2	21.0	2	100	0	84	50	0	0	50	1.00
59460--59508	23	2.2	22	82	10	55	57	4	0	38	1.18
59773--59995	72	3.0	74	81	14	271	43	4	8	43	1.55
59783--59995	37	5.8	36	76	12	218	43	4	7	44	1.53
59968--60021	26	2.1	26	100	0	108	40	3	7	48	1.49
60008--60076	33	2.2	32	82	12	81	42	2	10	44	1.53
60081--60152	12	5.5	13	79	11	60	15	4	1	79	0.96
60079--60133	20	2.8	20	80	5	58	18	3	1	76	1.02
61069--61160	30	3.1	30	87	0	139	30	19	11	38	1.88
61218--61265	20	2.4	20	100	0	96	41	20	8	29	1.81
61659--61709	26	2.0	26	88	0	75	49	19	3	27	1.66
61658--61720	26	2.4	26	81	0	72	49	19	4	26	1.68
62272--62322	9	5.7	9	85	0	57	49	17	5	27	1.70
62271--62322	27	1.9	27	84	7	70	48	17	5	28	1.70
62537--62595	30	2.0	30	86	0	82	37	23	8	30	1.85
70256--70350	49	1.9	49	86	0	136	14	34	33	16	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
75450--75474	5	5.0	5	100	0	50	80	20	0	0	0.72
78999--79069	20	3.7	19	73	14	56	1	18	7	73	1.13
79533--79585	3	17.7	3	100	0	106	66	0	0	33	0.92
79721--80471	116	6.6	116	90	5	1009	29	19	14	36	1.92
81044--81341	130	2.3	130	98	0	578	36	22	13	26	1.92
81253--81497	52	4.7	52	98	0	481	37	24	15	23	1.93
93250--93292	17	2.6	16	78	10	50	72	2	0	25	0.97
95187--95239	21	2.5	21	87	0	79	20	24	18	35	1.95
95229--95281	20	2.7	20	96	0	97	37	22	20	18	1.94
95477--95542	22	3.0	22	86	0	96	24	37	15	22	1.92
95943--95976	14	2.4	14	100	0	68	14	5	17	61	1.52
95957--95994	20	1.9	20	88	0	58	13	7	18	60	1.56
96891--96920	15	1.9	16	93	6	53	20	3	13	63	1.43
97816--97867	20	2.6	20	90	0	77	38	25	19	17	1.93
97839--97932	33	2.8	34	80	3	118	44	22	19	13	1.85
97906--97954	20	2.5	20	86	0	71	34	24	20	20	1.96
97819--97984	87	1.9	87	87	0	242	43	21	18	16	1.87
97999--98085	20	4.3	20	86	0	102	25	17	20	36	1.94
98569--98673	21	5.0	21	72	3	86	22	36	18	22	1.95
100206--100259	14	3.5	14	73	22	54	44	20	24	11	1.83
100186--100281	33	2.9	34	92	3	158	43	20	22	12	1.86
100219--100286	20	3.8	19	72	21	74	47	19	22	11	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100330--100443	20	5.7	20	86	2	158	20	21	22	35	1.96
100332--100444	60	1.9	60	90	3	183	21	21	22	35	1.96
102856--102909	24	2.2	24	90	0	81	38	20	20	20	1.93
103748--103794	20	2.3	20	85	0	58	21	19	27	31	1.97
103791--103833	20	2.2	20	95	0	77	23	20	18	37	1.94
103830--103896	21	3.2	21	91	0	98	41	16	23	17	1.89
103882--103929	20	2.4	20	96	0	87	39	20	20	18	1.92
104230--104259	3	10.0	3	92	0	51	33	3	0	63	1.11
105975--106066	45	2.0	45	95	0	166	34	9	18	36	1.84
110496--110550	21	2.6	21	77	8	58	34	21	20	23	1.97
110538--110766	20	11.4	20	81	5	230	37	25	17	19	1.93
111459--111505	24	2.0	24	87	8	69	25	14	21	38	1.92
111680--111704	12	2.1	12	100	0	50	72	0	28	0	0.86
113970--114135	33	4.8	34	82	10	192	46	19	21	13	1.83
113989--114239	53	4.8	50	82	13	244	46	18	22	13	1.83
114003--114236	72	3.3	72	82	8	304	46	17	21	13	1.83
114128--114221	33	2.8	33	95	1	170	45	19	22	12	1.83
114033--114239	86	2.3	89	93	4	348	45	17	23	13	1.83
114216--114331	53	2.2	52	86	3	160	18	23	18	38	1.93
114254--114341	19	4.8	19	82	14	123	13	22	15	47	1.81
114432--114482	14	3.6	14	94	0	93	45	21	0	33	1.52
116408--116561	19	8.6	19	75	14	139	45	22	20	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
116483--116539	14	3.7	14	75	20	51	43	22	22	10	1.84
116426--116556	33	3.8	33	89	5	181	46	22	21	9	1.80
116425--116561	52	2.6	51	74	7	141	45	21	21	10	1.81
116573--116599	14	1.9	14	100	0	54	7	14	29	48	1.71
116557--116651	33	2.9	33	88	0	145	8	15	27	48	1.74
116557--116685	19	7.3	19	73	17	116	9	15	27	48	1.75
116783--117098	93	3.4	93	99	0	614	45	18	13	21	1.85
118790--118827	14	2.7	14	95	0	67	42	23	23	10	1.85
118818--118868	19	2.7	19	93	0	84	43	21	23	11	1.85
118880--118936	14	3.7	14	75	20	60	8	24	22	43	1.81
118864--118943	33	2.4	33	95	0	142	8	21	22	47	1.78
118924--118997	21	3.5	21	80	7	96	14	20	17	47	1.83
119493--119684	20	9.6	20	86	4	253	19	19	27	34	1.96
119652--119750	42	2.4	43	76	8	98	22	19	22	36	1.95
119737--119787	20	2.5	20	77	0	57	17	13	31	37	1.89
119891--120114	68	3.4	68	79	13	288	27	11	12	48	1.75
120531--120562	6	5.3	6	100	0	64	15	0	50	34	1.45
120887--120967	39	2.1	39	97	0	153	14	19	12	53	1.73
121132--121196	21	3.1	22	74	17	66	43	0	3	53	1.16
121831--121892	28	2.2	28	88	5	90	40	1	8	50	1.42
122926--123011	29	3.0	29	93	3	138	18	20	15	45	1.85
123388--123544	64	2.5	63	79	10	176	26	18	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
129691--129720	2	15.0	2	100	0	60	50	0	0	50	1.00
129731--129773	21	2.0	21	86	0	59	34	0	6	58	1.25
130761--130886	63	2.0	63	100	0	252	33	26	12	26	1.93
132790--132859	30	2.3	30	90	0	104	42	4	5	47	1.47
133485--133516	15	2.2	15	94	5	57	65	0	3	31	1.08
135703--135824	53	2.3	54	98	1	237	57	12	8	22	1.61
146357--146422	32	2.1	32	85	0	87	43	31	9	15	1.77
146362--146431	32	2.2	32	81	0	77	45	30	10	14	1.77
146518--146598	32	2.7	29	72	12	81	38	24	8	28	1.85
146662--146719	28	2.1	28	96	0	107	27	13	12	46	1.79

Tables:   1   2   3