genome.fa.s8749.2.7.7.80.10.50.1000.1.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: VEPZ01008749.1 Hibiscus syriacus cultivar Beakdansim tig00111840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  379273

Tables:   1   2   3   

This is table  1  of  3  ( 257 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)
4633--4670	3	12.7	3	83	10	51	63	2	0	34	1.09
4703--4746	5	8.8	5	100	0	88	59	0	40	0	0.98
6358--6410	25	2.0	27	86	13	76	49	7	30	13	1.69
8303--8355	2	27.5	2	92	7	92	0	50	0	49	1.00
13164--13525	184	2.0	182	91	4	595	45	9	3	41	1.52
13509--13558	27	2.0	25	84	11	66	50	2	0	48	1.12
16754--18054	106	12.3	106	92	1	1943	23	18	24	33	1.97
21818--21842	2	12.5	2	100	0	50	52	0	0	48	1.00
29514--29566	2	27.0	2	88	3	81	50	0	3	45	1.19
33268--33306	16	2.4	16	91	0	60	20	28	17	33	1.96
33388--33440	27	2.0	26	82	10	63	45	1	5	47	1.37
33444--33489	19	2.5	19	82	3	58	32	6	0	60	1.22
33473--33511	14	2.7	14	88	11	53	35	2	5	56	1.35
33534--33567	14	2.6	13	86	13	52	35	2	0	61	1.11
34117--34171	23	2.4	23	87	0	74	34	29	14	21	1.93
34956--34982	7	3.9	7	100	0	54	59	14	25	0	1.36
36753--36932	19	9.6	18	68	25	90	55	1	1	42	1.17
36768--36812	22	2.0	22	87	8	65	57	0	0	42	0.98
36780--36851	28	2.5	29	84	8	94	55	0	0	44	0.99
36781--36845	10	6.9	9	78	15	60	53	0	0	46	1.00
36831--36912	35	2.3	35	82	14	96	54	0	3	41	1.18
36876--36973	24	4.1	23	76	12	99	53	1	4	41	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36823--36996	36	4.8	34	69	18	95	52	1	4	41	1.27
36753--36932	36	5.3	33	68	20	97	55	1	1	42	1.17
36820--36983	15	8.8	19	68	24	68	53	1	3	41	1.26
36860--36976	50	2.4	47	79	14	128	54	0	3	41	1.23
36901--37003	21	4.9	22	73	15	76	51	2	3	41	1.35
36901--37080	62	3.0	64	81	13	179	50	6	3	40	1.46
37006--37082	24	2.8	27	78	19	88	49	10	2	37	1.51
37085--37127	21	2.1	20	86	4	59	44	2	6	46	1.43
37114--37191	35	2.2	36	86	4	104	38	7	10	43	1.67
37213--37244	7	4.6	7	100	0	64	12	0	40	46	1.42
37403--37437	8	4.4	8	88	0	52	40	0	11	48	1.39
37398--37437	14	2.9	14	84	0	53	40	2	10	47	1.50
37479--37602	13	8.1	14	70	22	58	41	4	6	47	1.48
37479--37598	15	7.7	15	70	22	54	41	4	6	47	1.49
37351--37527	88	2.0	88	83	8	227	40	5	5	49	1.47
37515--37591	18	4.3	18	80	9	77	48	2	3	45	1.34
37569--37602	13	2.6	13	95	0	59	44	0	5	50	1.26
37680--37736	27	2.1	27	80	6	62	42	3	1	52	1.28
37716--37750	18	1.9	18	94	0	61	37	0	2	60	1.12
37689--37782	27	3.2	28	71	21	77	44	3	3	48	1.34
37689--37960	20	13.3	20	71	16	123	45	3	4	46	1.38
37689--37946	63	4.2	62	77	11	205	46	3	3	46	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37796--37907	33	3.5	32	73	18	99	50	3	2	43	1.33
37919--37967	2	24.5	2	83	8	55	42	0	6	51	1.27
39278--39373	25	3.8	25	78	19	78	44	1	2	52	1.19
39334--39379	21	2.1	21	84	4	56	45	2	0	52	1.13
39278--39373	26	3.8	26	81	13	96	44	1	2	52	1.19
39279--39386	50	2.2	50	81	8	123	44	0	2	51	1.22
39369--39453	31	2.7	31	77	14	84	38	5	3	51	1.43
39531--39597	23	2.9	23	95	2	116	53	0	0	46	1.00
39512--39666	77	2.0	77	80	7	172	52	0	1	45	1.13
39538--39666	23	5.2	24	79	18	104	53	0	1	44	1.09
39559--39665	53	2.1	50	81	11	119	54	0	1	43	1.11
39579--39665	27	3.4	26	78	15	92	55	0	2	42	1.12
39580--39666	25	3.4	25	81	15	90	54	0	2	43	1.13
39529--39681	77	2.0	78	81	8	179	53	0	2	43	1.19
46909--46937	2	14.5	2	100	0	58	51	0	0	48	1.00
52555--52609	18	3.1	18	92	5	85	18	21	43	16	1.88
53112--53174	30	2.1	30	84	0	81	38	12	6	42	1.68
56751--56787	2	18.5	2	100	0	74	48	0	0	51	1.00
56773--56877	33	3.2	33	94	2	185	38	0	0	60	1.03
56783--56868	7	11.9	7	69	16	59	34	1	0	63	1.02
61406--61430	8	3.1	8	100	0	50	48	0	0	52	1.00
69426--69496	35	2.0	35	97	0	133	35	11	15	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
76553--76594	16	2.6	16	96	3	75	50	0	33	16	1.46
79852--79912	14	4.3	14	68	4	50	45	0	0	54	1.00
79866--79921	15	3.0	20	65	26	50	41	0	0	58	0.98
79848--79924	32	2.4	33	81	12	90	44	0	0	55	0.99
79854--79915	20	2.8	24	67	20	62	46	0	0	53	1.00
81651--81742	42	2.2	42	82	0	112	26	30	15	28	1.96
82356--82393	19	2.0	19	85	10	51	44	5	10	39	1.61
82759--83490	277	2.6	274	81	5	821	33	23	19	23	1.97
82759--83490	139	5.3	138	84	4	791	33	23	19	23	1.97
86714--86757	22	2.0	22	86	8	63	45	2	0	52	1.13
95977--96052	32	2.4	32	88	0	116	30	27	25	17	1.97
109908--110085	85	2.1	85	93	0	302	30	19	21	28	1.97
109908--110127	85	2.6	85	87	0	278	29	19	21	29	1.98
116663--116692	15	2.0	15	100	0	60	46	13	0	40	1.43
125533--125558	11	2.4	11	100	0	52	53	0	0	46	1.00
127440--127479	18	2.2	18	100	0	80	20	32	30	17	1.95
128244--128306	6	10.7	6	93	1	92	49	0	0	50	1.00
128238--128316	18	4.5	17	79	7	52	45	0	0	54	0.99
133892--133928	15	2.5	15	90	0	56	29	21	5	43	1.75
142807--143370	113	5.0	113	89	2	839	37	15	19	28	1.91
143307--143351	24	1.9	23	82	13	56	48	4	26	20	1.68
143707--143786	24	3.4	24	83	10	78	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
143707--143773	3	22.3	3	90	6	100	35	0	0	64	0.94
145166--145195	3	10.0	3	92	0	51	33	3	0	63	1.11
145379--145420	20	2.2	19	86	4	57	33	0	2	64	1.07
145275--145511	120	2.0	117	83	6	300	37	7	8	45	1.63
147572--147630	31	1.9	31	86	6	84	35	0	3	61	1.13
147663--147720	9	6.1	9	76	9	53	58	3	0	37	1.15
151955--152029	28	2.7	28	78	0	87	45	20	8	26	1.78
154432--154525	24	4.0	24	87	2	127	36	20	19	24	1.95
156085--156127	18	2.4	18	85	14	54	65	2	11	20	1.36
163818--163853	17	2.1	17	89	0	54	25	30	27	16	1.97
165410--165444	18	2.0	18	88	5	54	48	14	5	31	1.67
166534--166576	19	2.3	19	80	11	52	44	0	4	51	1.22
166526--166610	23	3.9	22	70	21	70	45	1	3	49	1.26
166504--166625	33	3.6	35	68	17	105	50	3	3	43	1.35
166873--166920	17	2.9	16	78	6	51	41	2	2	54	1.24
168130--168360	9	23.7	9	68	18	56	48	5	2	44	1.37
168347--168404	11	5.2	12	76	15	54	55	10	0	34	1.34
168052--168362	2	158.5	2	68	18	156	47	4	2	45	1.37
168204--168444	20	11.9	20	69	13	100	48	7	2	42	1.43
170264--170418	11	14.7	10	70	18	75	49	5	1	42	1.37
170254--170335	2	44.0	2	72	18	70	50	1	1	47	1.16
170296--170418	11	11.5	11	73	11	80	48	7	1	42	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
171136--171195	31	1.9	31	86	6	86	38	11	8	41	1.72
171166--171235	20	3.4	20	74	14	79	47	10	5	37	1.61
171154--171250	42	2.3	42	92	3	158	48	9	4	38	1.54
171168--171237	22	3.3	22	69	15	74	47	8	5	38	1.58
171230--171310	42	1.9	42	87	5	119	46	7	3	41	1.49
171913--171937	8	3.1	8	100	0	50	36	40	12	12	1.79
172232--172328	45	2.1	46	81	5	117	25	27	5	41	1.77
174206--174248	22	2.0	22	86	9	61	25	4	2	67	1.22
175509--175656	56	2.7	56	86	5	219	44	6	3	45	1.45
175619--175672	14	4.2	12	79	13	54	55	1	1	40	1.21

Tables:   1   2   3